Cpsf3 (cleavage and polyadenylation specific factor 3) - Rat Genome Database

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Gene: Cpsf3 (cleavage and polyadenylation specific factor 3) Heterocephalus glaber
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Symbol: Cpsf3
Name: cleavage and polyadenylation specific factor 3
RGD ID: 18917188
Description: ENCODES a protein that exhibits 5'-3' RNA exonuclease activity (inferred); metal ion binding (inferred); nuclease activity (inferred); INVOLVED IN co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway (inferred); mRNA 3'-end processing (inferred); mRNA 3'-end processing by stem-loop binding and cleavage (inferred); PARTICIPATES IN 3'-end pre-mRNA processing pathway; RNA polymerase II transcription termination pathway; ASSOCIATED WITH Neurodevelopmental Disorder with Hypotonia, Microcephaly, and Seizures (ortholog); NEURODEVELOPMENTAL DISORDER WITH MICROCEPHALY, HYPOTONIA, NYSTAGMUS, AND SEIZURES (ortholog); FOUND IN mRNA cleavage and polyadenylation specificity factor complex (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Cleavage and polyadenylation specificity factor subunit 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624969265,117 - 290,361 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624969265,457 - 290,514 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:21993625   PMID:30032202  


Genomics

Comparative Map Data
Cpsf3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624969265,117 - 290,361 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624969265,457 - 290,514 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
CPSF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3829,423,654 - 9,473,101 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl29,423,651 - 9,473,101 (+)EnsemblGRCh38hg38GRCh38
GRCh3729,563,783 - 9,613,230 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3629,481,319 - 9,530,678 (+)NCBINCBI36Build 36hg18NCBI36
Build 3429,514,465 - 9,563,825NCBI
Celera29,475,764 - 9,525,116 (+)NCBICelera
Cytogenetic Map2p25.1NCBI
HuRef29,409,149 - 9,458,762 (+)NCBIHuRef
CHM1_129,493,101 - 9,542,657 (+)NCBICHM1_1
T2T-CHM13v2.029,448,733 - 9,498,144 (+)NCBIT2T-CHM13v2.0
Cpsf3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391221,336,298 - 21,365,057 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1221,335,392 - 21,365,057 (+)EnsemblGRCm39 Ensembl
GRCm381221,286,273 - 21,315,056 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1221,285,391 - 21,315,056 (+)EnsemblGRCm38mm10GRCm38
MGSCv371221,292,158 - 21,320,917 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361221,532,916 - 21,561,324 (+)NCBIMGSCv36mm8
Celera1219,589,812 - 19,618,910 (-)NCBICelera
Cytogenetic Map12A1.3NCBI
cM Map128.3NCBI
Cpsf3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8646,564,855 - 46,592,776 (+)NCBIGRCr8
mRatBN7.2640,836,121 - 40,864,129 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl640,836,097 - 40,864,128 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx641,158,291 - 41,186,220 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0641,472,982 - 41,500,910 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0640,906,246 - 40,934,169 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0643,363,792 - 43,391,712 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl643,363,792 - 43,391,712 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0660,231,498 - 60,259,421 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4641,844,971 - 41,873,619 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1641,848,090 - 41,876,746 (+)NCBI
Celera640,123,274 - 40,151,191 (+)NCBICelera
Cytogenetic Map6q16NCBI
Cpsf3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554875,146,541 - 5,170,077 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554875,146,541 - 5,170,077 (+)NCBIChiLan1.0ChiLan1.0
CPSF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v212117,053,752 - 117,103,110 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A117,057,732 - 117,107,078 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A9,413,517 - 9,462,758 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A9,576,871 - 9,626,202 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A9,576,871 - 9,626,193 (+)Ensemblpanpan1.1panPan2
CPSF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1176,537,404 - 6,576,121 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl176,537,465 - 6,575,825 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha176,465,190 - 6,504,684 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0176,636,209 - 6,675,495 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl176,636,240 - 6,675,584 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1176,528,730 - 6,567,996 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0176,531,134 - 6,570,198 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0176,544,518 - 6,584,022 (+)NCBIUU_Cfam_GSD_1.0
Cpsf3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629251,059,277 - 51,095,135 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365325,814,329 - 5,850,352 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365325,814,331 - 5,850,188 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CPSF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3126,868,467 - 126,905,746 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13126,868,519 - 126,905,699 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23135,136,985 - 135,174,154 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CPSF3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11498,174,022 - 98,226,486 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1498,173,117 - 98,226,907 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604514,096,428 - 14,147,720 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000000841   ⟹   ENSHGLP00000000801
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_004624969265,117 - 290,361 (-)Ensembl
RefSeq Acc Id: XM_004875247   ⟹   XP_004875304
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624969265,457 - 290,514 (-)NCBI
RefSeq Acc Id: XM_021252482   ⟹   XP_021108141
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624969265,457 - 290,514 (-)NCBI
RefSeq Acc Id: XM_021252483   ⟹   XP_021108142
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624969265,730 - 290,514 (-)NCBI
RefSeq Acc Id: XM_021252484   ⟹   XP_021108143
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624969265,730 - 290,514 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004875304 (Get FASTA)   NCBI Sequence Viewer  
  XP_021108141 (Get FASTA)   NCBI Sequence Viewer  
  XP_021108142 (Get FASTA)   NCBI Sequence Viewer  
  XP_021108143 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EHB07715 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000000801
GenBank Protein JAN99491 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_004875304   ⟸   XM_004875247
- Peptide Label: isoform X2
- UniProtKB: G5BEK4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021108141   ⟸   XM_021252482
- Peptide Label: isoform X1
- UniProtKB: A0AAX6SHZ9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021108143   ⟸   XM_021252484
- Peptide Label: isoform X4
- UniProtKB: A0AAX6SHY9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021108142   ⟸   XM_021252483
- Peptide Label: isoform X3
- UniProtKB: A0AAX6SJC3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000000801   ⟸   ENSHGLT00000000841


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000000666 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000000841 ENTREZGENE
Gene3D-CATH 3.40.50.10890 UniProtKB/TrEMBL
  3.60.15.10 UniProtKB/TrEMBL
InterPro Beta_Casp UniProtKB/TrEMBL
  CPSF73-100_C UniProtKB/TrEMBL
  Metallo-B-lactamas UniProtKB/TrEMBL
  RibonucZ/Hydroxyglut_hydro UniProtKB/TrEMBL
  RMMBL UniProtKB/TrEMBL
  RNA_Proc_MBL-domain UniProtKB/TrEMBL
KEGG Report hgl:101721287 UniProtKB/TrEMBL
NCBI Gene Cpsf3 ENTREZGENE
PANTHER CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR FAMILY MEMBER UniProtKB/TrEMBL
  CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR SUBUNIT 3 UniProtKB/TrEMBL
Pfam Beta-Casp UniProtKB/TrEMBL
  CPSF73-100_C UniProtKB/TrEMBL
  Lactamase_B UniProtKB/TrEMBL
  RMMBL UniProtKB/TrEMBL
SMART Beta-Casp UniProtKB/TrEMBL
  CPSF73-100_C UniProtKB/TrEMBL
  Lactamase_B UniProtKB/TrEMBL
Superfamily-SCOP SSF56281 UniProtKB/TrEMBL
UniProt A0AAX6SHY9 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SHZ9 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SJC3 ENTREZGENE, UniProtKB/TrEMBL
  G5BEK4 ENTREZGENE, UniProtKB/TrEMBL