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ONTOLOGY REPORT - ANNOTATIONS


Term:RNA 3'-end processing
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Accession:GO:0031123 term browser browse the term
Definition:Any process involved in forming the mature 3' end of an RNA molecule.


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RNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Cstf3 cleavage stimulation factor subunit 3 JBrowse link 3 94,530,586 94,603,378 RGD:13792537
G Lin28a lin-28 homolog A JBrowse link 5 152,230,343 152,247,873 RGD:1624291
G Lin28b lin-28 homolog B JBrowse link 20 50,482,536 50,580,273 RGD:1624291
G Tut4 terminal uridylyl transferase 4 JBrowse link 5 128,063,880 128,168,726 RGD:1624291
G Tut7 terminal uridylyl transferase 7 JBrowse link 17 5,225,854 5,279,674 RGD:1624291
box C/D snoRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Fbl fibrillarin JBrowse link 1 85,103,519 85,112,619 RGD:13792537
G Fbll1 fibrillarin-like 1 JBrowse link 10 20,620,957 20,622,600 RGD:13792537
G Larp7 La ribonucleoprotein 7, transcriptional regulator JBrowse link 2 231,866,888 231,882,002 RGD:1600115
RGD:1624291
box H/ACA snoRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Dkc1 dyskerin pseudouridine synthase 1 JBrowse link X 155,844,914 155,862,363 RGD:13792537
G Parn poly(A)-specific ribonuclease JBrowse link 10 1,309,724 1,461,123 RGD:1624291
endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G AC135409.1 RGD:13792537
G Rps21 ribosomal protein S21 JBrowse link 3 175,629,176 175,630,198 RGD:13792537
exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Eri1 exoribonuclease 1 JBrowse link 16 60,307,148 60,327,237 RGD:13792537
G Eri3 ERI1 exoribonuclease family member 3 JBrowse link 5 136,406,009 136,533,408 RGD:13792537
G Exosc10 exosome component 10 JBrowse link 5 165,374,964 165,398,195 RGD:13792537
G Exosc2 exosome component 2 JBrowse link 3 10,151,734 10,161,997 RGD:13792537
G Exosc3 exosome component 3 JBrowse link 5 60,866,498 60,871,734 RGD:13792537
G Exosc7 exosome component 7 JBrowse link 8 132,204,628 132,229,968 RGD:13792537
G Exosc8 exosome component 8 JBrowse link 2 143,925,643 143,932,240 RGD:13792537
G Exosc9 exosome component 9 JBrowse link 2 123,264,679 123,275,623 RGD:13792537
mitochondrial mRNA polyadenylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Pnpt1 polyribonucleotide nucleotidyltransferase 1 JBrowse link 14 113,530,470 113,561,645 RGD:1624291
mitochondrial RNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Pnpt1 polyribonucleotide nucleotidyltransferase 1 JBrowse link 14 113,530,470 113,561,645 RGD:1624291
RGD:13792537
G Supv3l1 Suv3 like RNA helicase JBrowse link 20 32,057,530 32,080,170 RGD:1600115
RGD:13792537
RGD:1624291
mitochondrial tRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Hsd17b10 hydroxysteroid (17-beta) dehydrogenase 10 JBrowse link X 21,696,796 21,699,241 RGD:1600115
RGD:1624291
G Trmt10c tRNA methyltransferase 10C, mitochondrial RNase P subunit JBrowse link 11 47,047,342 47,052,420 RGD:1624291
G Trnt1 tRNA nucleotidyl transferase 1 JBrowse link 4 138,855,497 138,869,217 RGD:1624291
mitochondrial tRNA 3'-trailer cleavage, endonucleolytic term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Elac2 elaC ribonuclease Z 2 JBrowse link 10 51,478,378 51,501,167 RGD:1600115
RGD:13792537
RGD:1624291
mRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Rprd1a regulation of nuclear pre-mRNA domain containing 1A JBrowse link 18 16,450,160 16,497,913 RGD:13792537
G Rprd1b regulation of nuclear pre-mRNA domain containing 1B JBrowse link 3 154,507,029 154,553,312 RGD:13792537
G Rprd2 regulation of nuclear pre-mRNA domain containing 2 JBrowse link 2 197,882,666 197,937,844 RGD:13792537
G Zc3h3 zinc finger CCCH type containing 3 JBrowse link 7 116,787,762 116,872,536 RGD:1624291
mRNA 3'-end processing by stem-loop binding and cleavage term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Cpsf2 cleavage and polyadenylation specific factor 2 JBrowse link 6 125,870,372 125,898,039 RGD:1624291
RGD:13792537
G Cpsf3 cleavage and polyadenylation specific factor 3 JBrowse link 6 43,363,792 43,391,712 RGD:1624291
RGD:13792537
G LOC100363294 stem-loop binding protein-like JBrowse link 18 27,550,426 27,557,699 RGD:13792537
G Lsm11 LSM11, U7 small nuclear RNA associated JBrowse link 10 31,023,561 31,041,700 RGD:1624291
RGD:13792537
G Slbp stem-loop binding protein JBrowse link 14 82,356,916 82,366,368 RGD:1624291
RGD:13792537
G Zfp473 zinc finger protein 473 JBrowse link 1 100,736,319 100,755,498 RGD:1624291
mRNA alternative polyadenylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Cpsf6 cleavage and polyadenylation specific factor 6 JBrowse link 7 60,385,688 60,417,661 RGD:1624291
G Cpsf7 cleavage and polyadenylation specific factor 7 JBrowse link 1 226,572,399 226,596,185 RGD:1600115
RGD:1624291
G Nudt21 nudix hydrolase 21 JBrowse link 19 11,451,366 11,470,637 RGD:1600115
RGD:1624291
G Virma vir like m6A methyltransferase associated JBrowse link 5 25,042,743 25,121,403 RGD:1624291
G Ythdc1 YTH domain containing 1 JBrowse link 14 22,971,834 23,002,326 RGD:1624291
mRNA polyadenylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ahcyl1 adenosylhomocysteinase-like 1 JBrowse link 2 210,438,884 210,474,350 RGD:1624291
G Aplp1 amyloid beta precursor like protein 1 JBrowse link 1 88,897,525 88,908,750 RGD:1624291
G App amyloid beta precursor protein JBrowse link 11 24,425,013 24,641,872 RGD:1624291
RGD:1600115
G Cdc73 cell division cycle 73 JBrowse link 13 60,403,771 60,496,511 RGD:1624291
RGD:1600115
G Clp1 cleavage factor polyribonucleotide kinase subunit 1 JBrowse link 3 72,125,269 72,137,122 RGD:13792537
G Cpsf1 cleavage and polyadenylation specific factor 1 JBrowse link 7 117,661,779 117,672,373 RGD:1624291
RGD:13792537
G Cpsf2 cleavage and polyadenylation specific factor 2 JBrowse link 6 125,870,372 125,898,039 RGD:13792537
G Cpsf3 cleavage and polyadenylation specific factor 3 JBrowse link 6 43,363,792 43,391,712 RGD:13792537
G Cstf2 cleavage stimulation factor subunit 2 JBrowse link X 104,882,726 104,909,746 RGD:1600115
G Fip1l1 factor interacting with PAPOLA and CPSF1 JBrowse link 14 36,150,381 36,208,395 RGD:13792537
G Leo1 LEO1 homolog, Paf1/RNA polymerase II complex component JBrowse link 8 82,380,906 82,405,293 RGD:1624291
RGD:1600115
G Mtpap mitochondrial poly(A) polymerase JBrowse link 17 56,046,507 56,068,185 RGD:1624291
RGD:13792537
G Nudt21 nudix hydrolase 21 JBrowse link 19 11,451,366 11,470,637 RGD:1600115
G Pabpc1l poly(A) binding protein, cytoplasmic 1-like JBrowse link 3 160,410,733 160,447,073 RGD:1624291
G Paf1 PAF1 homolog, Paf1/RNA polymerase II complex component JBrowse link 1 85,362,421 85,367,999 RGD:1624291
RGD:1600115
G Papola poly (A) polymerase alpha JBrowse link 6 129,609,068 129,662,002 RGD:1624291
RGD:13792537
G Papolg poly(A) polymerase gamma JBrowse link 14 108,624,359 108,658,371 RGD:13792537
G Pcf11 PCF11 cleavage and polyadenylation factor subunit JBrowse link 1 157,463,014 157,494,134 RGD:13792537
G Scaf8 SR-related CTD-associated factor 8 JBrowse link 1 44,017,801 44,120,619 RGD:13792537
G Ssu72 SSU72 homolog, RNA polymerase II CTD phosphatase JBrowse link 5 173,152,964 173,182,720 RGD:1624291
RGD:13792537
RGD:1600115
G Sympk symplekin JBrowse link 1 79,931,097 79,959,461 RGD:1624291
RGD:13792537
G Tent2 terminal nucleotidyltransferase 2 JBrowse link 2 22,746,290 22,798,252 RGD:13792537
G Tent4b terminal nucleotidyltransferase 4B JBrowse link 19 19,771,289 19,834,759 RGD:1624291
G Tut1 terminal uridylyl transferase 1, U6 snRNA-specific JBrowse link 1 225,151,462 225,162,445 RGD:1600115
RGD:13792537
RGD:1624291
G Wdr33 WD repeat domain 33 JBrowse link 18 24,584,832 24,689,681 RGD:13792537
negative regulation of mRNA polyadenylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ccnt1 cyclin T1 JBrowse link 7 140,215,052 140,245,958 RGD:1624291
G Cdk9 cyclin-dependent kinase 9 JBrowse link 3 11,742,269 11,747,117 RGD:1624291
G Ctr9 CTR9 homolog, Paf1/RNA polymerase II complex component JBrowse link 1 175,839,140 175,869,167 RGD:1624291
G Nelfe negative elongation factor complex member E JBrowse link 20 4,530,328 4,536,085 RGD:1624291
G Rnf20 ring finger protein 20 JBrowse link 5 64,892,996 64,920,397 RGD:1624291
G Rnf40 ring finger protein 40 JBrowse link 1 199,037,472 199,052,823 RGD:1624291
G Supt5h SPT5 homolog, DSIF elongation factor subunit JBrowse link 1 85,437,780 85,466,854 RGD:1624291
G Zc3h14 zinc finger CCCH type containing 14 JBrowse link 6 122,729,834 122,767,462 RGD:13792537
RGD:1600115
polyadenylation-dependent snoRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Exosc10 exosome component 10 JBrowse link 5 165,374,964 165,398,195 RGD:13792537
G Exosc2 exosome component 2 JBrowse link 3 10,151,734 10,161,997 RGD:13792537
G Exosc3 exosome component 3 JBrowse link 5 60,866,498 60,871,734 RGD:13792537
G Exosc4 exosome component 4 JBrowse link 7 117,390,302 117,393,044 RGD:13792537
G Exosc5 exosome component 5 JBrowse link 1 82,452,104 82,461,607 RGD:13792537
G Exosc6 exosome component 6 JBrowse link 19 43,190,879 43,193,164 RGD:13792537
G Parn poly(A)-specific ribonuclease JBrowse link 10 1,309,724 1,461,123 RGD:1624291
positive regulation of mRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ccnb1 cyclin B1 JBrowse link 2 30,782,133 30,791,106 RGD:1578405
G Cdc73 cell division cycle 73 JBrowse link 13 60,403,771 60,496,511 RGD:1624291
RGD:1600115
G Dhx36 DEAH-box helicase 36 JBrowse link 2 152,785,844 152,824,549 RGD:1600115
RGD:1624291
G Leo1 LEO1 homolog, Paf1/RNA polymerase II complex component JBrowse link 8 82,380,906 82,405,293 RGD:1624291
RGD:1600115
G Ncbp1 nuclear cap binding protein subunit 1 JBrowse link 5 61,734,118 61,767,098 RGD:1624291
RGD:1600115
G Ncbp2 nuclear cap binding protein subunit 2 JBrowse link 11 72,071,838 72,103,087 RGD:1624291
G Paf1 PAF1 homolog, Paf1/RNA polymerase II complex component JBrowse link 1 85,362,421 85,367,999 RGD:1624291
RGD:1600115
positive regulation of mRNA polyadenylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Cpeb1 cytoplasmic polyadenylation element binding protein 1 JBrowse link 1 143,171,457 143,278,485 RGD:1624291
G Cpeb3 cytoplasmic polyadenylation element binding protein 3 JBrowse link 1 255,660,165 255,842,671 RGD:1624291
G Hsf1 heat shock transcription factor 1 JBrowse link 7 117,538,523 117,565,478 RGD:1624291
G Nudt21 nudix hydrolase 21 JBrowse link 19 11,451,366 11,470,637 RGD:1600115
RGD:1624291
pre-mRNA cleavage required for polyadenylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G AC096468.1 RGD:13792537
G Cpsf2 cleavage and polyadenylation specific factor 2 JBrowse link 6 125,870,372 125,898,039 RGD:13792537
G Cpsf4 cleavage and polyadenylation specific factor 4 JBrowse link 12 11,199,893 11,215,690 RGD:13792537
G Cpsf6 cleavage and polyadenylation specific factor 6 JBrowse link 7 60,385,688 60,417,661 RGD:1624291
G Cpsf7 cleavage and polyadenylation specific factor 7 JBrowse link 1 226,572,399 226,596,185 RGD:1600115
RGD:1624291
G Cstf2 cleavage stimulation factor subunit 2 JBrowse link X 104,882,726 104,909,746 RGD:13792537
G Cstf2t cleavage stimulation factor subunit 2, tau variant JBrowse link 1 249,574,954 249,578,520 RGD:13792537
G Fip1l1 factor interacting with PAPOLA and CPSF1 JBrowse link 14 36,150,381 36,208,395 RGD:13792537
RGD:1600115
G Ncbp1 nuclear cap binding protein subunit 1 JBrowse link 5 61,734,118 61,767,098 RGD:1624291
RGD:1600115
G Ncbp2 nuclear cap binding protein subunit 2 JBrowse link 11 72,071,838 72,103,087 RGD:1624291
G Nudt21 nudix hydrolase 21 JBrowse link 19 11,451,366 11,470,637 RGD:1624291
G Tut1 terminal uridylyl transferase 1, U6 snRNA-specific JBrowse link 1 225,151,462 225,162,445 RGD:1624291
RGD:1600115
recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Cdc73 cell division cycle 73 JBrowse link 13 60,403,771 60,496,511 RGD:13792537
G Polr2d RNA polymerase II subunit D JBrowse link 18 24,570,762 24,577,894 RGD:13792537
regulation of mRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ahcyl1 adenosylhomocysteinase-like 1 JBrowse link 2 210,438,884 210,474,350 RGD:1624291
G Papola poly (A) polymerase alpha JBrowse link 6 129,609,068 129,662,002 RGD:1624291
G Zfp36l1 zinc finger protein 36, C3H type-like 1 JBrowse link 6 103,308,032 103,313,074 RGD:1624291
regulation of mRNA polyadenylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ncbp1 nuclear cap binding protein subunit 1 JBrowse link 5 61,734,118 61,767,098 RGD:1624291
RGD:1600115
G Ncbp2 nuclear cap binding protein subunit 2 JBrowse link 11 72,071,838 72,103,087 RGD:1624291
G Snrpa small nuclear ribonucleoprotein polypeptide A JBrowse link 1 83,999,670 84,008,429 RGD:10755561
G Zc3h3 zinc finger CCCH type containing 3 JBrowse link 7 116,787,762 116,872,536 RGD:1624291
RNA 3' uridylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Lin28a lin-28 homolog A JBrowse link 5 152,230,343 152,247,873 RGD:1624291
G Tent4a terminal nucleotidyltransferase 4A JBrowse link 1 36,400,056 36,433,238 RGD:1624291
G Tent4b terminal nucleotidyltransferase 4B JBrowse link 19 19,771,289 19,834,759 RGD:1624291
G Tut4 terminal uridylyl transferase 4 JBrowse link 5 128,063,880 128,168,726 RGD:1624291
RGD:13792537
G Tut7 terminal uridylyl transferase 7 JBrowse link 17 5,225,854 5,279,674 RGD:1624291
RGD:13792537
rRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Eri1 exoribonuclease 1 JBrowse link 16 60,307,148 60,327,237 RGD:1624291
RGD:1600115
snoRNA polyadenylation term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Tent4a terminal nucleotidyltransferase 4A JBrowse link 1 36,400,056 36,433,238 RGD:13792537
G Tent4b terminal nucleotidyltransferase 4B JBrowse link 19 19,771,289 19,834,759 RGD:1624291
RGD:13792537
snRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ints12 integrator complex subunit 12 JBrowse link 2 238,253,114 238,270,722 RGD:13792537
G Ints14 integrator complex subunit 14 JBrowse link 8 70,446,157 70,471,140 RGD:13792537
G Ints2 integrator complex subunit 2 JBrowse link 10 73,632,805 73,690,952 RGD:13792537
G Ints5 integrator complex subunit 5 JBrowse link 1 225,091,612 225,096,390 RGD:13792537
G Ints6 integrator complex subunit 6 JBrowse link 15 45,844,050 45,929,996 RGD:13792537
G Ints6l integrator complex subunit 6 like JBrowse link X 158,835,334 158,887,055 RGD:13792537
G Ints7 integrator complex subunit 7 JBrowse link 13 110,257,571 110,310,413 RGD:13792537
G Ints8 integrator complex subunit 8 JBrowse link 5 24,446,002 24,493,819 RGD:13792537
G Toe1 target of EGR1, exonuclease JBrowse link 5 135,659,733 135,663,299 RGD:1624291
RGD:13792537
tRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Ptcd1 pentatricopeptide repeat domain 1 JBrowse link 12 11,215,795 11,233,633 RGD:1600115
RGD:13792537
G Ssb small RNA binding exonuclease protection factor La JBrowse link 3 56,092,425 56,102,008 RGD:1624291
tRNA 3'-terminal CCA addition term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Trnt1 tRNA nucleotidyl transferase 1 JBrowse link 4 138,855,497 138,869,217 RGD:1624291
tRNA 3'-trailer cleavage term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Polr3k RNA polymerase III subunit K JBrowse link 3 177,374,812 177,379,009 RGD:1600115
tRNA 3'-trailer cleavage, endonucleolytic term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Elac1 elaC ribonuclease Z 1 JBrowse link 18 69,706,522 69,723,869 RGD:13792537
U1 snRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Exosc7 exosome component 7 JBrowse link 8 132,204,628 132,229,968 RGD:13792537
G Exosc8 exosome component 8 JBrowse link 2 143,925,643 143,932,240 RGD:13792537
G Exosc9 exosome component 9 JBrowse link 2 123,264,679 123,275,623 RGD:13792537
U2 snRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G AABR07035479.1 RGD:1600115
G Ints1 integrator complex subunit 1 JBrowse link 12 16,950,704 16,974,896 RGD:1624291
G LOC103689975 integrator complex subunit 1-like JBrowse link 12 18,073,980 18,082,353 RGD:13792537
U4 snRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Exosc2 exosome component 2 JBrowse link 3 10,151,734 10,161,997 RGD:13792537
G Exosc3 exosome component 3 JBrowse link 5 60,866,498 60,871,734 RGD:13792537
G Exosc4 exosome component 4 JBrowse link 7 117,390,302 117,393,044 RGD:13792537
G Exosc5 exosome component 5 JBrowse link 1 82,452,104 82,461,607 RGD:13792537
G Exosc6 exosome component 6 JBrowse link 19 43,190,879 43,193,164 RGD:13792537
G Exosc7 exosome component 7 JBrowse link 8 132,204,628 132,229,968 RGD:13792537
G Exosc8 exosome component 8 JBrowse link 2 143,925,643 143,932,240 RGD:13792537
G Exosc9 exosome component 9 JBrowse link 2 123,264,679 123,275,623 RGD:13792537
U5 snRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Exosc7 exosome component 7 JBrowse link 8 132,204,628 132,229,968 RGD:13792537
G Exosc8 exosome component 8 JBrowse link 2 143,925,643 143,932,240 RGD:13792537
G Exosc9 exosome component 9 JBrowse link 2 123,264,679 123,275,623 RGD:13792537
U6 snRNA 3'-end processing term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Tut1 terminal uridylyl transferase 1, U6 snRNA-specific JBrowse link 1 225,151,462 225,162,445 RGD:1600115
RGD:1624291
G Usb1 U6 snRNA biogenesis phosphodiesterase 1 JBrowse link 19 10,105,750 10,118,701 RGD:1624291
RGD:13792537
RGD:1600115

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19578
    metabolic process 11901
      organic substance metabolic process 11299
        macromolecule metabolic process 9767
          gene expression 6007
            RNA processing 883
              RNA 3'-end processing 105
                RNA 3' uridylation 5
                mRNA 3'-end processing + 59
                mRNA cleavage and polyadenylation specificity factor complex assembly 0
                mitochondrial RNA 3'-end processing + 5
                ncRNA 3'-end processing + 42
Path 2
Term Annotations click to browse term
  biological_process 19578
    cellular process 18362
      cellular metabolic process 10737
        cellular nitrogen compound metabolic process 6385
          nucleobase-containing compound metabolic process 5276
            nucleic acid metabolic process 4782
              RNA metabolic process 4290
                RNA processing 883
                  RNA 3'-end processing 105
                    RNA 3' uridylation 5
                    mRNA 3'-end processing + 59
                    mRNA cleavage and polyadenylation specificity factor complex assembly 0
                    mitochondrial RNA 3'-end processing + 5
                    ncRNA 3'-end processing + 42
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.