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ONTOLOGY REPORT - ANNOTATIONS

Term:mRNA 3'-end processing
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Accession:GO:0031124 term browser browse the term
Definition:Any process involved in forming the mature 3' end of an mRNA molecule.
Synonyms:xref: Reactome:R-HSA-72187 "mRNA 3'-end processing";   Reactome:R-HSA-75067 "Processing of Capped Intronless Pre-mRNA"

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mRNA 3'-end processing term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cdc73 cell division cycle 73 involved_in ISO (PMID:21329879) UniProt PMID:21329879 NCBI chrNW_004624814:298,015...460,314
Ensembl chrNW_004624814:299,444...460,391 		JBrowse link
G Clp1 cleavage factor polyribonucleotide kinase subunit 1 involved_in IEA InterPro
UniProt		 GO_REF:0000002 GO_REF:0000104 NCBI chrNW_004624864:3,063,555...3,067,045
Ensembl chrNW_004624864:3,063,555...3,067,051 		JBrowse link
G Cpsf3 cleavage and polyadenylation specific factor 3 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004624969:265,457...290,514
Ensembl chrNW_004624969:265,117...290,361 		JBrowse link
G Cpsf4 cleavage and polyadenylation specific factor 4 involved_in IEA UniProt GO_REF:0000104 NCBI chrNW_004624740:32,860,217...32,876,878
Ensembl chrNW_004624740:32,860,137...32,876,878 		JBrowse link
G Cpsf6 cleavage and polyadenylation specific factor 6 involved_in ISO (PMID:20695905) ComplexPortal PMID:20695905 NCBI chrNW_004624948:53,317...83,983
Ensembl chrNW_004624948:56,246...84,051 		JBrowse link
G Cpsf7 cleavage and polyadenylation specific factor 7 involved_in ISO (PMID:20695905) ComplexPortal PMID:20695905 NCBI chrNW_004624926:802,033...822,372 JBrowse link
G Cstf1 cleavage stimulation factor subunit 1 involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624790:133,872...143,762
Ensembl chrNW_004624790:132,023...144,363 		JBrowse link
G Cstf2 cleavage stimulation factor subunit 2 involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624902:1,755,308...1,780,826 JBrowse link
G Cstf2t cleavage stimulation factor subunit 2 tau variant involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624791:11,924,945...11,929,106
Ensembl chrNW_004624791:11,925,197...11,927,188 		JBrowse link
G Cstf3 cleavage stimulation factor subunit 3 involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624767:14,071,196...14,144,758
Ensembl chrNW_004624767:14,071,392...14,144,258 		JBrowse link
G Leo1 LEO1 homolog, Paf1/RNA polymerase II complex component involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004624731:8,467,914...8,485,978
Ensembl chrNW_004624731:8,467,877...8,485,851 		JBrowse link
G Mblac1 metallo-beta-lactamase domain containing 1 involved_in ISO (PMID:30507380) UniProt PMID:30507380 NCBI chrNW_004624740:16,870,490...16,871,646
Ensembl chrNW_004624740:16,870,789...16,871,574 		JBrowse link
G Nudt21 nudix hydrolase 21 involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624757:115,249...130,775
Ensembl chrNW_004624757:114,844...130,097 		JBrowse link
G Paf1 PAF1 homolog, Paf1/RNA polymerase II complex component involved_in ISO (PMID:21329879) UniProt PMID:21329879 NCBI chrNW_004624794:12,719,819...12,725,109
Ensembl chrNW_004624794:12,719,861...12,725,122 		JBrowse link
G Papola poly(A) polymerase alpha involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004624734:6,846,537...6,916,808 JBrowse link
G Pcf11 PCF11 cleavage and polyadenylation factor subunit involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624845:6,712,401...6,736,778
Ensembl chrNW_004624845:6,712,408...6,736,773 		JBrowse link
G Rprd1a regulation of nuclear pre-mRNA domain containing 1A involved_in IEA UniProt
TreeGrafter		 GO_REF:0000104 GO_REF:0000118 NCBI chrNW_004624779:10,299,378...10,371,213
Ensembl chrNW_004624779:10,301,878...10,371,184 		JBrowse link
G Rprd1b regulation of nuclear pre-mRNA domain containing 1B involved_in IEA UniProt
TreeGrafter		 GO_REF:0000104 GO_REF:0000118 NCBI chrNW_004624842:1,571,112...1,629,800
Ensembl chrNW_004624842:1,509,117...1,630,193 		JBrowse link
G Rprd2 regulation of nuclear pre-mRNA domain containing 2 involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624772:18,107,235...18,215,996
Ensembl chrNW_004624772:18,107,317...18,212,239 		JBrowse link
G Tent2 terminal nucleotidyltransferase 2 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004624869:4,089,253...4,148,455
Ensembl chrNW_004624869:4,089,282...4,147,211 		JBrowse link
G Tent4b terminal nucleotidyltransferase 4B involved_in ISO (PMID:28383716) UniProt PMID:28383716 NCBI chrNW_004624757:6,415,226...6,491,539
Ensembl chrNW_004624757:6,422,421...6,491,434 		JBrowse link
G Tut1 terminal uridylyl transferase 1, U6 snRNA-specific involved_in ISO (PMID:18288197) UniProt PMID:18288197 NCBI chrNW_004624926:1,113,331...1,123,930
Ensembl chrNW_004624926:1,112,309...1,123,959 		JBrowse link
G Wdr33 WD repeat domain 33 involved_in IEA InterPro GO_REF:0000002 NCBI chrNW_004624732:14,183,734...14,280,825
Ensembl chrNW_004624732:14,183,132...14,280,795 		JBrowse link
G Zc3h3 zinc finger CCCH-type containing 3 acts_upstream_of_or_within ISO (PMID:16115198) MGI PMID:16115198 NCBI chrNW_004624735:13,230,576...13,320,068
Ensembl chrNW_004624735:13,230,642...13,319,666 		JBrowse link
G Zcchc8 zinc finger CCHC-type containing 8 involved_in ISO (PMID:31488579) UniProt PMID:31488579 NCBI chrNW_004624747:22,615,310...22,639,076 JBrowse link
co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cpsf3 cleavage and polyadenylation specific factor 3 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004624969:265,457...290,514
Ensembl chrNW_004624969:265,117...290,361 		JBrowse link
G Cpsf6 cleavage and polyadenylation specific factor 6 involved_in ISO (PMID:29276085) UniProt PMID:29276085 NCBI chrNW_004624948:53,317...83,983
Ensembl chrNW_004624948:56,246...84,051 		JBrowse link
G Cpsf7 cleavage and polyadenylation specific factor 7 involved_in ISO (PMID:29276085) UniProt PMID:29276085 NCBI chrNW_004624926:802,033...822,372 JBrowse link
G Cstf3 cleavage stimulation factor subunit 3 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004624767:14,071,196...14,144,758
Ensembl chrNW_004624767:14,071,392...14,144,258 		JBrowse link
G Nudt21 nudix hydrolase 21 involved_in ISO (PMID:29276085) UniProt PMID:29276085 NCBI chrNW_004624757:115,249...130,775
Ensembl chrNW_004624757:114,844...130,097 		JBrowse link
G Papola poly(A) polymerase alpha involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004624734:6,846,537...6,916,808 JBrowse link
G Ssu72 SSU72 homolog, RNA polymerase II CTD phosphatase involved_in ISO (PMID:20861839) UniProt PMID:20861839 NCBI chrNW_004624818:8,147,173...8,177,682
Ensembl chrNW_004624818:8,147,185...8,177,684 		JBrowse link
G Tut1 terminal uridylyl transferase 1, U6 snRNA-specific involved_in ISO (PMID:21102410) UniProt PMID:21102410 NCBI chrNW_004624926:1,113,331...1,123,930
Ensembl chrNW_004624926:1,112,309...1,123,959 		JBrowse link
mitochondrial mRNA 3'-end processing term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Angel2 angel homolog 2 involved_in ISO (PMID:36180430) FlyBase PMID:36180430 NCBI chrNW_004624771:18,334,720...18,353,080
Ensembl chrNW_004624771:18,336,190...18,353,087 		JBrowse link
mRNA 3'-end processing by stem-loop binding and cleavage term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cpsf2 cleavage and polyadenylation specific factor 2 involved_in IEA InterPro
TreeGrafter		 GO_REF:0000002 GO_REF:0000118 NCBI chrNW_004624734:8,737,023...8,769,088
Ensembl chrNW_004624734:8,736,911...8,768,583 		JBrowse link
G Cpsf3 cleavage and polyadenylation specific factor 3 involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chrNW_004624969:265,457...290,514
Ensembl chrNW_004624969:265,117...290,361 		JBrowse link
G LOC101712453 oocyte-specific histone RNA stem-loop-binding protein 2-like involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624743:31,123,971...31,130,189 JBrowse link
G Lsm10 LSM10, U7 small nuclear RNA associated involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624764:19,303,267...19,310,124
Ensembl chrNW_004624764:19,306,932...19,310,108 		JBrowse link
G Lsm11 LSM11, U7 small nuclear RNA associated involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624733:31,720,054...31,730,809
Ensembl chrNW_004624733:31,723,022...31,730,724 		JBrowse link
G Slbp stem-loop histone mRNA binding protein involved_in IEA TreeGrafter GO_REF:0000118 NCBI chrNW_004624755:25,699,977...25,714,348 JBrowse link
G Znf473 zinc finger protein 473 involved_in ISO (PMID:16714279) UniProt PMID:16714279 NCBI chrNW_004624832:4,296,755...4,320,988
Ensembl chrNW_004624832:4,296,664...4,313,707 		JBrowse link
mRNA alternative polyadenylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cpsf6 cleavage and polyadenylation specific factor 6 involved_in ISO (PMID:20695905), (PMID:23187700), (PMID:29276085) UniProt PMID:20695905 PMID:23187700 PMID:29276085 NCBI chrNW_004624948:53,317...83,983
Ensembl chrNW_004624948:56,246...84,051 		JBrowse link
G Cpsf7 cleavage and polyadenylation specific factor 7 involved_in ISO (PMID:20695905), (PMID:29276085) UniProt PMID:20695905 PMID:29276085 NCBI chrNW_004624926:802,033...822,372 JBrowse link
G Nudt21 nudix hydrolase 21 involved_in ISO (PMID:17098938), (PMID:20695905), (PMID:23187700), (PMID:29276085) UniProt PMID:17098938 PMID:20695905 PMID:23187700 PMID:29276085 NCBI chrNW_004624757:115,249...130,775
Ensembl chrNW_004624757:114,844...130,097 		JBrowse link
G Rbfox2 RNA binding fox-1 homolog 2 ISO RGD PMID:34731606 RGD:329845875 NCBI chrNW_004624752:11,766,033...12,027,804
Ensembl chrNW_004624752:11,765,679...12,022,320 		JBrowse link
G Ythdc1 YTH N6-methyladenosine RNA binding protein C1 acts_upstream_of_or_within ISO (PMID:29799838) MGI PMID:29799838 NCBI chrNW_004624761:346,268...374,954 JBrowse link
positive regulation of mRNA 3'-end processing term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cdc73 cell division cycle 73 involved_in ISO (PMID:19136632) UniProt PMID:19136632 NCBI chrNW_004624814:298,015...460,314
Ensembl chrNW_004624814:299,444...460,391 		JBrowse link
G Dhx36 DEAH-box helicase 36 involved_in ISO (PMID:27940037) UniProt PMID:27940037 NCBI chrNW_004624730:31,857,157...31,913,985
Ensembl chrNW_004624730:31,855,992...31,914,253 		JBrowse link
G Ncbp1 nuclear cap binding protein subunit 1 involved_in ISO (PMID:9342333) UniProt PMID:9342333 NCBI chrNW_004624825:3,166,895...3,206,444
Ensembl chrNW_004624825:3,164,700...3,206,241 		JBrowse link
G Ncbp2 nuclear cap binding protein subunit 2 involved_in ISO (PMID:9342333) UniProt PMID:9342333 NCBI chrNW_004624730:61,925,831...61,931,451
Ensembl chrNW_004624730:61,925,831...61,931,385 		JBrowse link
regulation of mRNA 3'-end processing term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ahcyl1 adenosylhomocysteinase like 1 involved_in
acts_upstream_of_or_within 		ISO (PMID:19224921) UniProt
MGI		 PMID:19224921 NCBI chrNW_004624772:5,743,658...5,782,458
Ensembl chrNW_004624772:5,743,556...5,782,557 		JBrowse link
G Cdk9 cyclin dependent kinase 9 involved_in ISO (PMID:19575011) UniProt PMID:19575011 NCBI chrNW_004624760:7,760,474...7,765,711 JBrowse link
G Cpeb1 cytoplasmic polyadenylation element binding protein 1 involved_in ISO (PMID:28383716) UniProt PMID:28383716 NCBI chrNW_004624768:18,386,415...18,468,879 JBrowse link
G Zfp36l1 ZFP36 ring finger protein like 1 involved_in IEA Ensembl GO_REF:0000107 NCBI chrNW_004624734:32,251,100...32,256,458
Ensembl chrNW_004624734:32,251,114...32,257,211 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 17646
    cellular process 17217
      metabolic process 10993
        primary metabolic process 9826
          RNA processing 1557
            RNA 3'-end processing 89
              mRNA 3'-end processing 42
                co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway 8
                mRNA 3'-end processing by stem-loop binding and cleavage 7
                mRNA alternative polyadenylation + 5
                mitochondrial mRNA 3'-end processing 1
                negative regulation of mRNA 3'-end processing 0
                positive regulation of mRNA 3'-end processing + 4
                regulation of mRNA 3'-end processing + 8
Path 2
Term Annotations click to browse term
  biological_process 17646
    cellular process 17217
      metabolic process 10993
        primary metabolic process 9826
          nucleobase-containing compound metabolic process 5857
            nucleic acid metabolic process 5350
              RNA metabolic process 4810
                RNA biosynthetic process 4612
                  RNA processing 1557
                    RNA 3'-end processing 89
                      mRNA 3'-end processing 42
                        co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway 8
                        mRNA 3'-end processing by stem-loop binding and cleavage 7
                        mRNA alternative polyadenylation + 5
                        mitochondrial mRNA 3'-end processing 1
                        negative regulation of mRNA 3'-end processing 0
                        positive regulation of mRNA 3'-end processing + 4
                        regulation of mRNA 3'-end processing + 8
paths to the root