| GO ID | Ontology | GO Term | Term Definition |
Proteins |
GO:0000727 | BP | double-strand break repair via break-induced replication | The error-free repair of a double-strand break in DNA in which the centromere-proximal end of a broken chromosome searches for a homologous region in an intact chromosome. DNA synthesis initiates from the 3' end of the invading DNA strand, using the intact chromosome as the template, and progresses to the end of the chromosome. |
CDC7, GINS4, GINS2 |
GO:0000729 | BP | DNA double-strand break processing | The 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang. |
NBN, BRCA1, MRE11A, DNA2, BLM, UBE2V2, RAD50, BARD1, SMARCAD1 |
GO:0000730 | BP | DNA recombinase assembly | The aggregation, arrangement and bonding together of strand exchange proteins (recombinases) into higher order oligomers on single-stranded DNA. |
RAD51C, RAD51, SWI5 |
GO:0000731 | BP | DNA synthesis involved in DNA repair | Synthesis of DNA that proceeds from the broken 3' single-strand DNA end and uses the homologous intact duplex as the template. |
RAD51C, NBN, RAD51D, POLD1, BRCA1, RFC3, MRE11A, DNA2, BRCA2, BLM, RAD51, POLE, POLD3, RAD50, RAD51AP1, BARD1, POLD4, EXO1, POLH |
GO:0000732 | BP | strand displacement | The rejection of the broken 3' single-strand DNA molecule that formed heteroduplex DNA with its complement in an intact duplex DNA. The Watson-Crick base pairing in the original duplex is restored. The rejected 3' single-strand DNA molecule reanneals with its original complement to reform two intact duplex molecules. |
RAD51C, NBN, RAD51D, BRCA1, MRE11A, DNA2, BRCA2, BLM, RAD51, RAD50, RAD51AP1, BARD1, EXO1 |
GO:0000733 | BP | DNA strand renaturation | The identification and annealing of complementary base pairs in single-strand DNA. |
RECQL4, ANXA1, TP53, SMARCA1, RECQL, BLM, RAD54L |
GO:0000737 | BP | DNA catabolic process, endonucleolytic | The chemical reactions and pathways resulting in the breakdown of DNA, involving the hydrolysis of internal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides. |
FBXO18 |
GO:0000738 | BP | DNA catabolic process, exonucleolytic | The chemical reactions and pathways resulting in the breakdown of DNA, involving the hydrolysis of terminal 3',5'-phosphodiester bonds in one or two strands of deoxyribonucleotides. |
ISG20 |
GO:0000773 | MF | phosphatidyl-N-methylethanolamine N-methyltransferase activity | Catalysis of the reaction: S-adenosyl-L-methionine + phosphatidyl-N-methylethanolamine = S-adenosyl-L-homocysteine + phosphatidyl-N-dimethylethanolamine. |
PEMT |
GO:0000774 | MF | adenyl-nucleotide exchange factor activity | Stimulates the hydrolysis and exchange of adenyl nucleotides by other proteins. |
BAG2, PFN1, HSPH1, GRPEL1, BAG5 |
GO:0000775 | CC | chromosome, centromeric region | The region of a chromosome that includes the centromeric DNA and associated proteins. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome. |
NDC80, BIRC5, OIP5, RAD21, TNKS, CENPB, PPP2R1A, MKI67, CENPA, CENPF, PPP2CB, CBX1, CENPE, FMR1, CBX3, PPP2R5C, SMC1A, PPP2R5A, PDS5A, CDCA8, SGOL2, CENPW, SGOL1, CENPQ, WAPL, CENPL, HJURP, NGDN, CDCA5, KIF2C, DSCC1, NUF2, SUV39H2, HELLS, PDS5B, MIS18A, SMC3, ZNF330 |
GO:0000776 | CC | kinetochore | A multisubunit complex that is located at the centromeric region of DNA and provides an attachment point for the spindle microtubules. |
DYNC1I1, NDC80, PPP1R12A, XPO1, ZNF207, BUB1, BUB3, BUB1B, ZWINT, TPR, APC, CLIP1, CBX5, RANGAP1, CENPF, PSEN1, PSEN2, NEK2, PLK1, SEC13, SUMO3, NUP107, DYNLL1, CENPE, CENPC, NUP160, MAD2L1, DCTN2, CKAP5, DCTN1, SMC1A, KIF22, CENPW, SGOL1, CENPV, TEX14, SKA3, ZNF276, NUP43, NUP37, KIF18A, KAT2B, ANAPC16, SEH1L, AURKB, SPAG5, KIF2C, NUP85, NDEL1, CENPH, ZWILCH, MEAF6, NDE1, LRWD1, SUGT1, KNSTRN, MAD1L1 |
GO:0000777 | CC | condensed chromosome kinetochore | A multisubunit complex that is located at the centromeric region of a condensed chromosome and provides an attachment point for the spindle microtubules. |
STRA13, DCTN6, DYNC1I1, NDC80, BIRC5, ZNF207, BUB1, BUB3, BUB1B, ZWINT, PPP1CC, RANGAP1, CSNK1A1, KNTC1, NEK2, NUP107, CENPC, MAD2L1, ITGB3BP, SEPT6, SMC1A, SEPT2, SEPT7, ERCC6L, SGOL2, CENPW, SGOL1, CENPU, CENPV, TEX14, APITD1, ZNF276, SPC24, HJURP, NUP43, NUP37, CASC5, NUDCD2, AHCTF1, ANAPC16, SEH1L, CENPN, BOD1, CHAMP1, SPAG5, KIF2C, CENPK, DCTN5, CENPO, NUP85, NUF2, NDEL1, CENPH, ZWILCH, MEAF6, SPC25, CENPM, NDE1, CFDP1, LRWD1, KNSTRN, MAD1L1 |
GO:0000778 | CC | condensed nuclear chromosome kinetochore | A multisubunit complex that is located at the centromeric region of a condensed nuclear chromosome and provides an attachment point for the spindle microtubules. |
BUB1B, CENPA, MIS18BP1 |
GO:0000779 | CC | condensed chromosome, centromeric region | The region of a condensed chromosome that includes the centromere and associated proteins, including the kinetochore. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome. |
CEBPB, NCAPD3, CENPE, CBX3, NCAPD2, SGOL1, AURKB |
GO:0000780 | CC | condensed nuclear chromosome, centromeric region | The region of a condensed nuclear chromosome that includes the centromere and associated proteins, including the kinetochore. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome. |
AURKA, CENPA, CENPC, KMT5B, SGOL1, KMT5C, AURKB |
GO:0000781 | CC | chromosome, telomeric region | The terminal region of a linear chromosome that includes the telomeric DNA repeats and associated proteins. |
CHEK1, RAD51D, RNF8, TNKS, H2AFX, CDK2, MRE11A, BLM, PTGES3, RIF1, SETX, SIRT2, SMC5, EID3, ERCC4, SMC6, TEP1, DHX36, POT1, NSMCE4A |
GO:0000783 | CC | nuclear telomere cap complex | A complex of DNA and protein located at the end of a linear chromosome in the nucleus that protects and stabilizes a linear chromosome. |
XRCC5, TERF1, ACD, POT1 |
GO:0000784 | CC | nuclear chromosome, telomeric region | The terminal region of a linear nuclear chromosome that includes the telomeric DNA repeats and associated proteins. |
SMCHD1, ORC5, KDM1A, NBN, H2AFY, RAD51D, TOX4, TNKS, SSB, CDK1, ERCC1, PARP1, PCNA, XRCC5, SP100, MCM3, POLD1, POLR2B, HIST1H2BB, MCM4, MCM5, MCM7, PPP1CC, FEN1, MSH2, CBX5, ATRX, MCM2, MRE11A, DNA2, BRCA2, TERF1, PPP1CA, PPP1CB, HIST1H4A, HIST1H3D, PRKDC, CBX1, H3F3A, PURA, RAD51, CBX3, ORC1, MCM6, LRIF1, THOC7, ALYREF, THOC2, RAD50, ERCC4, NABP1, ACD, THOC3, PPP1R10, DCLRE1C, NABP2, TNKS2, PIF1, OBFC1, POT1, GAR1, H2AFY2, ORC3, SUN2 |
GO:0000785 | CC | chromatin | The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome. |
HMGN4, CHEK1, OIP5, RAD21, MAF, TOX4, MBD4, MYCN, HMGN2, RB1, POLA1, CDK4, JUNB, JUND, SFPQ, CCND2, MCM7, TMPO, TMPO, CENPF, UBE2A, MCM2, PLK1, UBE2B, CBX1, RAD51, CBX3, HDAC1, KIF22, JMJD1C, PDS5A, ESCO2, NIPBL, WAPL, SLF2, FBXO18, AHCTF1, PPP1R10, DSCC1, PINK1, NUCKS1, SUV39H2, PDS5B, PARPBP, MIS18A, PLK2, SMC3, L3MBTL1 |
GO:0000786 | CC | nucleosome | A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA into higher order structures. |
H2AFY, H2AFZ, HIST1H2AG, HIST1H1E, H2AFX, HIST1H1C, HIST1H2AD, HIST1H2BB, CENPA, HIST1H4A, HIST1H2BC, HIST1H3D, H3F3A, HIST1H1A, SHPRH, HIST2H2BE, HIST2H2AA3, H2AFV, KAT6B, H1FX, KAT6A, HIST1H2AC, HIST1H2BH, SLF1, H2AFJ, H2AFY2 |
GO:0000788 | CC | nuclear nucleosome | A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA in the nucleus into higher order structures. |
HIST1H2BK, HIST1H2BB, CENPA, HIST1H2BD, HIST1H2BC, HIST1H3D, H3F3A, HIST2H2BE, HIST3H2A, HIST1H2BH, MPHOSPH8 |
GO:0000790 | CC | nuclear chromatin | The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome in the nucleus. |
EME2, DFFA, ARID1A, ENC1, POLR3G, KLF4, SNAI2, KDM1A, H2AFY, NCOR1, NFATC1, CBX7, MBD3, ACTL6A, ESR1, TP53, HNRNPC, HIST1H2AG, AR, IRF1, TCF4, TCF3, MUC1, H2AFX, JUNB, JUND, TAL1, CEBPB, RCC1, NR1D1, HIST1H2AD, HMGB2, STAT3, BUD31, NRIP1, NASP, UBE2A, SMARCA2, SMARCA4, MSH6, HIRA, DLX5, ACTB, UBE2B, SMAD3, E2F1, MEF2A, HIST1H1A, PPARD, RELA, MXD1, GABPA, RAD51, RBBP4, CHAF1A, CHAF1B, NR1H3, SMAD4, HDAC1, RUNX3, RUNX2, CHD4, NCOA1, SMAD2, EZH2, HIST2H2AA3, SMARCD3, H2AFV, CCAR2, SMARCC2, IPO4, HDAC2, CREBBP, RAD50, SMARCC1, HIST1H2AC, WBP2, EME1, RAD51AP1, CDCA5, PAWR, EHMT2, UHRF1, TCF12, CITED2, POLR3GL, H2AFJ, TIPIN, NUCKS1, PLCB1, TCF7L2, ASF1B, H2AFY2, TRPS1, TIMELESS, ASF1A, NCOR2, NCOA3 |
GO:0000791 | CC | euchromatin | A dispersed and relatively uncompacted form of chromatin. |
HSF1, RRP1B, UHRF1 |
GO:0000792 | CC | heterochromatin | A compact and highly condensed form of chromatin. |
CBX7, MBD3, UBA1, HSF1, RRP1B, UHRF1, SMARCAD1 |
GO:0000793 | CC | condensed chromosome | A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure. |
SMARCA5, H2AFY, BANF1, SMC2, HMGB1, TOP2A, CDK2, HMGB2, MKI67, RAD51, NCAPD2, CHAMP1, FANCD2, BAZ1B, L3MBTL1 |
GO:0000794 | CC | condensed nuclear chromosome | A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct nuclear chromosome. |
CHEK1, RGS12, RAD51C, BRD4, H2AFX, RCC1, TUBG1, LRPPRC, NEK2, RAD51, SMC1A, RRS1, RSPH1, TTN, TOPBP1, P3H4, KIFAP3, RAD50, NIFK, ADD3, SUN2 |
GO:0000795 | CC | synaptonemal complex | A proteinaceous scaffold found between homologous chromosomes during meiosis. |
SYN1, MLH1, PLK1, PMS1, UBE2I, WAPL, P3H4, MLH3 |
GO:0000796 | CC | condensin complex | A multisubunit protein complex that plays a central role in chromosome condensation. |
SMC2, NCAPH, NCAPD2, NCAPG, SMC4 |
GO:0000797 | CC | condensin core heterodimer | The core heterodimer of a condensin complex, a multisubunit protein complex that plays a central role in chromosome condensation. |
NCAPD2 |
GO:0000798 | CC | nuclear cohesin complex | A cohesin complex required for cohesion between sister chromatids that remain in the nucleus. |
WAPL |
GO:0000799 | CC | nuclear condensin complex | A multisubunit protein complex that plays a central role in the condensation of chromosomes that remain in the nucleus. |
NCAPD3, NCAPD2 |
GO:0000800 | CC | lateral element | A proteinaceous core found between sister chromatids during meiotic prophase. |
BRCA1, BRCA2, BLM, RAD51, SMC3 |
GO:0000803 | CC | sex chromosome | A chromosome involved in sex determination. |
SMC5, SMC6 |
GO:0000805 | CC | X chromosome | The sex chromosome present in both sexes of species in which the male is the heterogametic sex. Two copies of the X chromosome are present in each somatic cell of females and one copy is present in males. |
SIN3B, CDK2 |
GO:0000806 | CC | Y chromosome | The sex chromosome present in males of species in which the male is the heterogametic sex; generally, the sex chromosome that pairs with the X chromosome in the heterogametic sex. The Y chromosome is absent from the cells of females and present in one copy in the somatic cells of males. |
SIN3B, CDK2 |
GO:0000808 | CC | origin recognition complex | A multisubunit complex that is located at the replication origins of a chromosome. |
ORC5, ORC1, ORC3, ORC6 |
GO:0000811 | CC | GINS complex | A heterotetrameric protein complex that associates with replication origins, where it is required for the initiation of DNA replication, and with replication forks. |
GINS1, GINS4, GINS2 |
GO:0000812 | CC | Swr1 complex | A multisubunit protein complex that is involved in chromatin remodeling. It is required for the incorporation of the histone variant H2AZ into chromatin. In S. cerevisiae, the complex contains Swr1p, a Swi2/Snf2-related ATPase, and 12 additional subunits. |
ZNHIT1, ANP32E, ING3, RUVBL2, RUVBL1, TRRAP |
GO:0000813 | CC | ESCRT I complex | An endosomal sorting complex required for transport. It consists of the class E vacuolar protein sorting (Vps) proteins and interacts with ubiquitinated cargoes. |
VPS37C, UBAP1L, VPS37A, MVB12A |
GO:0000815 | CC | ESCRT III complex | An endosomal sorting complex required for transport. Consists of two soluble subcomplexes of highly charged coiled-coil proteins and is required for sorting and/or concentration of multivesicular body (MVB) cargoes. |
CHMP2A, CHMP4B |
GO:0000818 | CC | nuclear MIS12/MIND complex | A multiprotein kinetochore subcomplex that binds to centromeric chromatin and forms part of the inner kinetochore of a chromosome in the nucleus. It helps to recruit outer kinetochore subunits that will bind to microtubules. Nuclear localization arises in some organisms because the nuclear envelope is not broken down during mitosis. In S. cerevisiae, it consists of at least four proteins: Mtw1p, Nnf1p, Nsl1p, and Dsn1. |
DSN1 |
GO:0000819 | BP | sister chromatid segregation | The cell cycle process in which sister chromatids are organized and then physically separated and apportioned to two or more sets. |
LATS1, TOP2A |
GO:0000821 | BP | regulation of arginine metabolic process | Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving arginine, 2-amino-5-(carbamimidamido)pentanoic acid. |
SLC7A7 |
GO:0000822 | MF | inositol hexakisphosphate binding | Interacting selectively and non-covalently with inositol hexakisphosphate. |
ITPR3 |
GO:0000827 | MF | inositol-1,3,4,5,6-pentakisphosphate kinase activity | Catalysis of the reaction: ATP + 1D-myo-inositol 1,3,4,5,6-pentakisphosphate = ADP + diphospho-1D-myo-inositol tetrakisphosphate. The isomeric configuration of diphospho-1D-myo-inositol tetrakisphosphate is unknown. |
PPIP5K1, IP6K2 |
GO:0000828 | MF | inositol hexakisphosphate kinase activity | Catalysis of the reaction: ATP + 1D-myo-inositol 1,2,3,4,5,6-hexakisphosphate = ADP + diphospho-1D-myo-inositol-pentakisphosphate. The isomeric configuration of diphospho-1D-myo-inositol-pentakisphosphate (PP-IP5) is unknown. |
PPIP5K1, IP6K2 |
GO:0000829 | MF | inositol heptakisphosphate kinase activity | Catalysis of the reaction: ATP + diphospho-1D-myo-inositol-pentakisphosphate = ADP + bis(diphospho)-1D-myo-inositol-tetrakisphosphate. The isomeric configurations of the diphospho-1D-myo-inositol-pentakisphosphate (PP-IP5) and bis(diphospho)-1D-myo-inositol-tetrakisphosphate (bis-PP-IP4) are unknown. |
PPIP5K1, IP6K2 |
GO:0000832 | MF | inositol hexakisphosphate 5-kinase activity | Catalysis of the reaction: ATP + 1D-myo-inositol 1,2,3,4,5,6-hexakisphosphate = ADP + 5-diphospho-1D-myo-inositol (1,2,3,4,6)pentakisphosphate. |
PPIP5K1, IP6K2 |
GO:0000836 | CC | Hrd1p ubiquitin ligase complex | A multiprotein complex that recognizes and ubiquitinates proteins with misfolded luminal and membrane domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p. In mammals, this complex contains the ubiquitin ligase HRD1 (Synoviolin) or AMFR (gp78). |
OS9, SYVN1, SEL1L |
GO:0000838 | CC | Hrd1p ubiquitin ligase ERAD-M complex | A multiprotein complex that recognizes and ubiquitinates proteins with misfolded membrane domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p. |
AMFR |
GO:0000839 | CC | Hrd1p ubiquitin ligase ERAD-L complex | A multiprotein complex that recognizes and ubiquitinates proteins with misfolded luminal domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p. |
SYVN1, SEL1L |
GO:0000900 | MF | translation repressor activity, nucleic acid binding | Antagonizes the ribosome-mediated translation of mRNA into a polypeptide via direct binding (through a selective and non-covalent interaction) to nucleic acid. |
PURA, CPEB4, CPEB2, CPEB3 |
GO:0000902 | BP | cell morphogenesis | The developmental process in which the size or shape of a cell is generated and organized. |
GREM1, RP2, CLU, VDR, IL7R, SOX6, LIPA, PSMB10, BCL6, YAP1, CSNK1A1, WNT3, TGFB2, ADAM8, NRG1, STK4, SART3, MAPK14, PTPRO, FRY, TENM4, PDPN, SHROOM3, ARHGEF2, STRADB, ECT2, NOX4, TBCCD1, TENM3, KLF2 |
GO:0000904 | BP | cell morphogenesis involved in differentiation | The change in form (cell shape and size) that occurs when relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. |
DKK1, LAMC3 |
GO:0000910 | BP | cytokinesis | The division of the cytoplasm and the plasma membrane of a cell and its partitioning into two daughter cells. |
DAPK3, PRC1, DIAPH2, ROCK2, RAB11FIP3, KIF20A, RALA, RALB, MYH9, BRCA2, PLK1, IST1, RAB11A, RHOB, KIF23, SEPT6, ESPL1, SEPT7, MAP9, TTC19, PIK3C3, NEK7, AHCTF1, NOX5, ECT2, NEK6, KLHL9, KLHL13 |
GO:0000915 | BP | actomyosin contractile ring assembly | The process of assembly of a ring composed of actin, myosin, and associated proteins that will function in cytokinesis. |
KIF23, RACGAP1 |
GO:0000920 | BP | cell separation after cytokinesis | The process of physically separating progeny cells after cytokinesis; this may involve enzymatic digestion of septum or cell wall components. |
CHMP2A, VPS4B, KIF20A, CEP55, PDCD6IP, MITD1, CHMP4B |
GO:0000921 | BP | septin ring assembly | The aggregation, arrangement and bonding together of septins and associated proteins to form an organized structure resembling a ring at the cell cortex. |
ANLN |
GO:0000922 | CC | spindle pole | Either of the ends of a spindle, where spindle microtubules are organized; usually contains a microtubule organizing center and accessory molecules, spindle microtubules and astral microtubules. |
DYNC1I1, WDR62, PRC1, CEP104, VPS4B, TNKS, LATS1, CCNB1, CDC25B, CTNNB1, NUP62, RANGAP1, BRCC3, CENPF, KNTC1, NEK2, KIF11, PLK1, CALM2, RAB11A, PPP2CB, GOLGA2, CDC20, LRMP, MAD2L1, UNC119, CKAP5, DCTN1, NEDD9, MAPK14, CSPP1, FAM110C, ODF2, SGOL1, FRY, PSRC1, CEP128, CKAP2L, NIN, POC1A, POC1B, NEK7, FBF1, NUDCD2, CKAP2, TOPBP1, HAUS1, RMDN1, SPDL1, CEP19, RMDN2, SPAG5, CEP89, PKP4, CDC6, KATNB1, CEP44, DSN1, AUNIP, NEK6, LATS2, RASSF1, TPX2, CDC14A, SMC3, SBDS, KNSTRN, MAD1L1 |
GO:0000923 | CC | equatorial microtubule organizing center | A microtubule organizing center formed by a band of gamma-tubulin that is recruited to a circumferential band of F-actin at the midpoint of a cell and which nucleates microtubules from the cell division site at the end of mitosis. |
MZT1, TUBGCP3 |
GO:0000930 | CC | gamma-tubulin complex | A multiprotein complex composed of gamma-tubulin and other non-tubulin proteins. Gamma-tubulin complexes are localized to microtubule organizing centers, and play an important role in the nucleation of microtubules. The number and complexity of non-tubulin proteins associated with these complexes varies between species. |
TUBG1, CKAP5, UXT |
GO:0000932 | CC | cytoplasmic mRNA processing body | A focus in the cytoplasm where mRNAs may become inactivated by decapping or some other mechanism. mRNA processing and binding proteins are localized to these foci. |
MEX3A, ZC3H12D, CNOT1, POLR2D, CNOT3, EIF4E, TOP1, PSMC3, PSMA2, PSMA4, ZFP36, PSMC2, LSM3, LSM6, POLR2G, ZFP36L1, SQSTM1, CAPRIN1, PUM1, PAN3, SAMD4B, DCP2, LSM14A, TNRC6A, RBPMS, EDC3, AJUBA, LIN28A, RC3H2, APOBEC3G, AGO4, PNRC2, EIF4ENIF1, LIMD1, CNOT7, NOCT, AGO2, TNRC6B, SAMD4A, CARHSP1, LSM2, LSM4, YTHDF2 |
GO:0000938 | CC | GARP complex | A quatrefoil tethering complex required for retrograde traffic from the early endosome back to the late Golgi and biogenesis of cytoplasmic vesicles. |
VPS52 |
GO:0000939 | CC | condensed chromosome inner kinetochore | The region of a condensed chromosome kinetochore closest to centromeric DNA; in mammals the CREST antigens (CENP proteins) are found in this layer; this layer may help define underlying centromeric chromatin structure and position of the kinetochore on the chromosome. |
CENPA |
GO:0000940 | CC | condensed chromosome outer kinetochore | The region of a condensed chromosome kinetochore most external to centromeric DNA; this outer region mediates kinetochore-microtubule interactions. |
BUB1B, CENPF, CENPE, SKA3, SKA2, SKA1, SPDL1 |
GO:0000941 | CC | condensed nuclear chromosome inner kinetochore | The region of a condensed nuclear chromosome kinetochore closest to centromeric DNA; this layer may help define underlying centromeric chromatin structure and position of the kinetochore on the chromosome. |
DSN1 |
GO:0000942 | CC | condensed nuclear chromosome outer kinetochore | The region of a condensed nuclear chromosome kinetochore most external to centromeric DNA; this outer region mediates kinetochore-microtubule interactions. |
NDC80, BUB1, CCNB1, PLK1 |
GO:0000956 | BP | nuclear-transcribed mRNA catabolic process | The chemical reactions and pathways resulting in the breakdown of nuclear-transcribed mRNAs in eukaryotic cells. |
EXOSC9, XRN1, EXOSC4, MRTO4, THRAP3, LSM5, LSM4 |
GO:0000957 | BP | mitochondrial RNA catabolic process | The chemical reactions and pathways resulting in the breakdown of RNA transcribed from the mitochondrial genome and occurring in the mitochondrion. |
PNPT1 |
GO:0000958 | BP | mitochondrial mRNA catabolic process | The chemical reactions and pathways resulting in the breakdown of mRNA transcribed from the mitochondrial genome and occurring in the mitochondrion. |
SUPV3L1, PNPT1 |
GO:0000961 | BP | negative regulation of mitochondrial RNA catabolic process | Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome. |
LRPPRC, SLIRP |
GO:0000962 | BP | positive regulation of mitochondrial RNA catabolic process | Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving catabolism in the mitochondrion of RNA transcribed from the mitochondrial genome. |
SUPV3L1, PNPT1 |
GO:0000964 | BP | mitochondrial RNA 5'-end processing | Any process involved in forming the mature 5' end of an RNA molecule transcribed from a mitochondrial genome; occurs in the mitochondrion. |
PNPT1 |
GO:0000965 | BP | mitochondrial RNA 3'-end processing | Any process involved in forming the mature 3' end of an RNA molecule transcribed from a mitochondrial genome; occurs in the mitochondrion. |
SUPV3L1, PNPT1 |
GO:0000972 | BP | transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery | The chromosome organization process in which the DNA sequence containing a gene transcribed by RNA polymerase II is maintained in a specific location at the nuclear periphery. In S. cerevisiae, this process involves cis-acting DNA sequences such as the TATA box and upstream activating sequence (UAS) elements, trans-acting transcriptional activators, and also the 3'-UTR of the transcript. |
NUP155, RAE1 |
GO:0000973 | BP | posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery | The chromosome organization process in which the DNA sequence containing a gene transcribed by RNA polymerase II is maintained in a specific location at the nuclear periphery even after transcription has been repressed. |
NUP107 |
GO:0000974 | CC | Prp19 complex | A protein complex consisting of Prp19 and associated proteins that is involved in the transition from the precatalytic spliceosome to the activated form that catalyzes step 1 of splicing, and which remains associated with the spliceosome through the second catalytic step. It is widely conserved, found in both yeast and mammals, though the exact composition varies. In S. cerevisiae, it contains Prp19p, Ntc20p, Snt309p, Isy1p, Syf2p, Cwc2p, Prp46p, Clf1p, Cef1p, and Syf1p. |
PLRG1, POLR2A, CDC5L, CRNKL1, RBM22, PRPF19 |
GO:0000975 | MF | regulatory region DNA binding | Interacting selectively and non-covalently with a DNA region that regulates a DNA-based process. Such processes include transcription, DNA replication, and DNA repair. |
IRF6, NFKB1, HMGA2, RUNX1 |
GO:0000976 | MF | transcription regulatory region sequence-specific DNA binding | Interacting selectively and non-covalently with a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA. The transcribed region might be described as a gene, cistron, or operon. |
ARNTL, NR5A2, SOX12, PARK2, THRA, EGR1, ATF3, ATF6, NFKB1, SFPQ, DDIT3, POU5F1, SOX4, HDAC1, NFE2L1, NONO, JMJD1C, ZNF658, PSPC1, PITX2, SUV39H2, NFE2L3 |
GO:0000977 | MF | RNA polymerase II regulatory region sequence-specific DNA binding | Interacting selectively and non-covalently with a specific sequence of DNA that is part of a regulatory region that controls the transcription of a gene or cistron by RNA polymerase II. |
ACTN4, H2AFY, ZBED1, ZFY, GLI3, NME1, ZFX, TAL1, CEBPB, EGR1, ATF1, ATF3, ATF4, ATF6, NFKB1, NR1D1, HNF1A, LMO2, RXRB, RORA, ETV5, BCL6, GATA4, NKX2-1, PRDM15, FOXK1, ZBED6, RUNX1, RELB, SATB1, MEF2A, SP3, RELA, MEF2C, DLX2, FOXC1, ZNF211, RUNX3, CUX1, MEF2D, POU6F1, ARID5B, ZMYND11, HLF, NFIL3, NFXL1, ZSCAN2, GATAD2A, AEBP1, ZNF548, KAT2B, GATA6, ZBED6CL, ZNF419, HES6, PURB, PHF12, MNT, ARID3A, IKZF5, ZNF552, ZNF586, H2AFY2, ZBTB4, MLX, TRPS1, ELF5, PLAGL1 |
GO:0000978 | MF | RNA polymerase II core promoter proximal region sequence-specific DNA binding | Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to a core promoter for RNA polymerase II. |
E2F8, MEIS1, NR5A2, NFIB, FOXP2, PER1, KDM6A, ZNF264, HOXA2, SMAD6, MITF, ZNF253, ZNF217, NFAT5, ZBTB7A, MBD3, ACTL6A, FOS, MYC, ESR1, NR3C1, JUN, PGR, HNRNPC, NFIC, H2AFZ, GLI2, GLI3, MYBL1, MYBL2, AR, IRF1, EGR2, ESRRA, SKI, SKIL, ETS2, FOSL1, FOSL2, TCF4, TCF3, MUC1, CREB1, GCFC2, JUNB, JUND, CEBPB, ATF3, ATF4, ELK1, NR1D1, MZF1, HOXA10, OTX2, DDIT3, SREBF1, PBX1, STAT3, ELK3, RFX2, RFX5, CEBPD, MEOX1, ETV1, ASCL1, SMARCA4, ZNF138, FOSB, NR1H2, DLX5, FOXL2, ACTB, YBX1, ELF3, SMAD3, TFAM, HSF1, INSM1, MEF2A, HHEX, CEBPZ, ZNF85, ZNF117, ZNF92, RELA, MXD1, MEF2C, GABPA, PAX8, PPARA, RBBP4, SREBF2, NFATC2, SMAD4, HDAC1, RUNX2, NFYC, ZNF273, MEF2D, CHD4, MTF1, NFATC4, NCOA2, SMAD2, SMAD1, ZIC1, ZNF141, IFI16, ZNF506, PLAG1, ZNF562, AKNA, CTCFL, SMARCC2, ZNF502, ZNF675, JDP2, NR4A3, HDAC2, SMARCC1, ZNF486, TCF12, PITX2, BCL11A, ZNF430, ZNF395, EBF2, PATZ1, TCF7L2, ZNF331, EHF, GRHL1, ZNF492, CHD7, ZNF639, ZNF148, KLF13, NFE2L3, PAXBP1, MAFB |
GO:0000979 | MF | RNA polymerase II core promoter sequence-specific DNA binding | Interacting selectively and non-covalently with the regulatory region composed of the transcription start site and binding sites for transcription factors of the RNA polymerase II basal transcription machinery. |
H2AFY, FOS, H2AFZ, TAL1, CEBPB, NR4A2, YAP1, STAT5B, MAZ, SOX8, H3F3A, HSF1, SP3, PAX8, EP300, RUNX2, MTF1, SUZ12, SMAD1, EZH2, NFIL3, NLRC5, GATA6, WBP2, SMAD5, ZNF335, SMYD3, HEYL, ZNF277, RUVBL2 |
GO:0000980 | MF | RNA polymerase II distal enhancer sequence-specific DNA binding | Interacting selectively and non-covalently with a RNA polymerase II (Pol II) distal enhancer. In mammalian cells, enhancers are distal sequences that increase the utilization of some promoters, and can function in either orientation and in any location (upstream or downstream) relative to the core promoter. |
NR5A2, BACH1, PAX4, NFATC1, MBD3, ACTL6A, JUN, HNRNPC, HOXB5, H2AFZ, HIVEP1, CREB1, TAL1, NFKB1, SFPQ, SMARCA4, ACTB, H3F3A, RELA, REL, ZBTB16, MEF2C, RBBP4, HDAC1, NFE2L1, CHD4, NONO, SMARCC2, HDAC2, SMARCC1, MED12, NR1H4, BACH2, RUVBL2 |
GO:0000981 | MF | RNA polymerase II transcription factor activity, sequence-specific DNA binding | Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription by RNA polymerase II. The transcription factor may or may not also interact selectively with a protein or macromolecular complex. |
NFIB, BHLHE40, FOXP2, SOX15, ZMYM6, TP53, JUN, ETS1, JUNB, JUND, TAL1, XBP1, ATF4, LMO2, PHB, BMPR1A, ERF, FOXG1, SOX8, FOXL2, GTF2I, ELF3, SIM1, FOXK1, FOXO4, RELB, POU5F1, MEF2A, SP3, MEF2C, FOXM1, FOXO1, FOXC1, RUNX3, RUNX2, TFDP1, SIM2, ZMYM3, MEF2D, PCBP1, TWIST1, QRICH1, ZBED5, ZNF518A, EPM2AIP1, FOXP4, ZBED8, KIAA1958, BHLHE22, ZSCAN18, GATA6, ZNF274, ZNF641, CDC5L, EPAS1, FOXP3, ZNF518B, PEG3, FOXP1, ZMYM2, ZMYM5, ELF5, FOXJ3, HIF3A |
GO:0000982 | MF | transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding | Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to a core promoter for RNA polymerase II (RNAP II) in order to modulate transcription by RNAP II. |
ARNTL, FOS, JUN, ETS1, FOSL1, FOSL2, ATF3, FOSB, ARNTL2, JDP2 |
GO:0000983 | MF | transcription factor activity, RNA polymerase II core promoter sequence-specific | Interacting selectively and non-covalently with a specific DNA sequence in an RNA polymerase II (Pol II) core promoter, the region composed of the transcription start site and binding sites for transcription factors of the Pol II basal transcription machinery, in order to modulate transcription by Pol II. The transcription factor may or may not also interact selectively with a protein or macromolecular complex. |
SMAD3, RELA, MEF2C, HEYL, HEY1 |
GO:0000987 | MF | core promoter proximal region sequence-specific DNA binding | Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to the core promoter. The transcribed region might be described as a gene, cistron, or operon. |
KLF4, SMAD3, SP3, SMAD4, CREBBP, UHRF1 |
GO:0000988 | MF | transcription factor activity, protein binding | Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules), in order to modulate transcription. A protein binding transcription factor may or may not also interact with the template nucleic acid (either DNA or RNA) as well. |
SMAD3, SMAD4, HEYL, HEY1 |
GO:0000989 | MF | transcription factor activity, transcription factor binding | Interacting selectively and non-covalently with a specific transcription factor, which may be a single protein or a complex, in order to modulate transcription. A protein binding transcription factor may or may not also interact with the template nucleic acid (either DNA or RNA) as well. |
PER1, ASCL1, HMGA2, FOXO1, CRY1, HIF1A |
GO:0000991 | MF | transcription factor activity, core RNA polymerase II binding | Interacting selectively and non-covalently with an RNA polymerase II (Pol II) complex, typically composed of twelve subunits, in order to modulate transcription. A protein binding transcription factor may or may not also interact with the template nucleic acid (either DNA or RNA) as well. |
GTF2F2 |
GO:0000993 | MF | RNA polymerase II core binding | Interacting selectively and non-covalently with RNA polymerase II core enzyme, a multisubunit eukaryotic nuclear RNA polymerase typically composed of twelve subunits. |
BRD4, IKBKAP, ELOF1, ZNF326, CCAR2, ELP4, WAC, SMYD3, ELP3, AGO2 |
GO:0001010 | MF | transcription factor activity, sequence-specific DNA binding transcription factor recruiting | The function of binding to a specific DNA sequence and recruiting another transcription factor to the DNA in order to modulate transcription. The recruited factor may bind DNA directly, or may be colocalized via protein-protein interactions. |
KLF4 |
GO:0001011 | MF | transcription factor activity, sequence-specific DNA binding, RNA polymerase recruiting | Interacting selectively and non-covalently with a specific DNA sequence and recruiting RNA polymerase to the DNA in order to form the preinitiation complex (PIC). |
TCF4 |
GO:0001012 | MF | RNA polymerase II regulatory region DNA binding | Interacting selectively and non-covalently with a DNA region that controls the transcription of a region of DNA by RNA polymerase II. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors. |
NKX2-1, NCOA1 |
GO:0001025 | MF | RNA polymerase III transcription factor binding | Interacting selectively and non-covalently with an RNA polymerase III transcription factor, any protein required to initiate or regulate transcription by RNA polymerase III. |
HDAC4, HDAC5 |
GO:0001042 | MF | RNA polymerase I core binding | Interacting selectively and non-covalently with RNA polymerase I core enzyme, a multisubunit eukaryotic nuclear RNA polymerase typically composed of seventeen subunits. |
ERBB2, SPTY2D1 |
GO:0001046 | MF | core promoter sequence-specific DNA binding | Interacting selectively and non-covalently with a sequence of DNA that is part of a core promoter region composed of the transcription start site and binding sites for the basal transcription machinery. The transcribed region might be described as a gene, cistron, or operon. |
CHD2, H2AFY, ESR1, TP53, TOP1, ATF4, NR1D1, RORA, PPARG, SOX9, NRIP1, MEOX1, CREM, MEF2C, SOX4, KLF10, MTA1, NR1D2, ZFHX3, CRY1, NR4A3, ESR2, PROX1, THRAP3 |
GO:0001047 | MF | core promoter binding | Interacting selectively and non-covalently with the regulatory region composed of the transcription start site and binding sites for the basal transcription machinery. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors. |
E2F8, ARNTL, KLF4, FOXO3, RB1, XBP1, ELK1, SFPQ, GADD45A, RBMX, NKX2-1, NOTCH1, HMGA2, HDAC4, GTF2B, HNRNPU, IRF9, E2F1, INSM1, RUNX1, RELB, EP300, MTA1, HDAC1, E2F2, MTF1, NONO, EZH2, CRY1, IFI16, CCAR1, PSPC1, HDAC2, NPAS2, MYBBP1A, FOXP3, DHX36, HDAC6, AGO2, HDAC5 |
GO:0001054 | MF | RNA polymerase I activity | Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains an RNA polymerase I specific promoter to direct initiation and catalyzes DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'. |
POLR1C, POLR1A, POLR2E, POLR2K, POLR2L, POLR1E, ZNRD1, POLR1D |