Cpsf4 (cleavage and polyadenylation specific factor 4) - Rat Genome Database

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Gene: Cpsf4 (cleavage and polyadenylation specific factor 4) Heterocephalus glaber
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Symbol: Cpsf4
Name: cleavage and polyadenylation specific factor 4
RGD ID: 18925589
Description: ENCODES a protein that exhibits sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN mRNA 3'-end processing (inferred); mRNA processing (inferred); PARTICIPATES IN 3'-end pre-mRNA processing pathway; RNA polymerase II transcription termination pathway; ASSOCIATED WITH pleomorphic xanthoastrocytoma (ortholog); FOUND IN intracellular membrane-bounded organelle (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cleavage and polyadenylation specificity factor subunit 4
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_00462474032,860,137 - 32,876,878 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474032,860,217 - 32,876,878 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Cpsf4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474032,860,137 - 32,876,878 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474032,860,217 - 32,876,878 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
CPSF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38799,438,943 - 99,457,373 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl799,438,922 - 99,457,373 (+)EnsemblGRCh38hg38GRCh38
GRCh37799,036,566 - 99,054,996 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36798,874,499 - 98,892,932 (+)NCBINCBI36Build 36hg18NCBI36
Build 34798,681,346 - 98,699,645NCBI
Celera793,770,764 - 93,789,197 (+)NCBICelera
Cytogenetic Map7q22.1NCBI
HuRef793,673,231 - 93,691,665 (+)NCBIHuRef
CHM1_1798,966,641 - 98,985,096 (+)NCBICHM1_1
T2T-CHM13v2.07100,677,844 - 100,696,279 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2798,396,337 - 98,414,768 (+)NCBI
Cpsf4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395145,104,023 - 145,118,851 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5145,104,023 - 145,118,851 (+)EnsemblGRCm39 Ensembl
GRCm385145,167,213 - 145,182,041 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5145,167,213 - 145,182,041 (+)EnsemblGRCm38mm10GRCm38
MGSCv375145,928,093 - 145,942,909 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365145,420,751 - 145,435,567 (+)NCBIMGSCv36mm8
Celera5142,159,526 - 142,174,282 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map585.08NCBI
Cpsf4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81214,543,536 - 14,559,350 (-)NCBIGRCr8
mRatBN7.2129,429,765 - 9,445,586 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl129,429,523 - 9,445,586 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1210,234,943 - 10,250,743 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01210,858,147 - 10,873,949 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0129,881,572 - 9,897,373 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01211,199,893 - 11,215,690 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1211,199,898 - 11,215,708 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01213,268,733 - 13,284,780 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4129,743,024 - 9,759,615 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11210,576,016 - 10,577,720 (+)NCBI
Celera1211,234,879 - 11,250,489 (-)NCBICelera
Cytogenetic Map12p11NCBI
Cpsf4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546015,110,989 - 15,128,243 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546015,111,624 - 15,128,243 (+)NCBIChiLan1.0ChiLan1.0
CPSF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26117,296,336 - 117,314,671 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17165,560,971 - 165,579,306 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0791,412,008 - 91,430,452 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17104,914,077 - 104,932,769 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7104,914,077 - 104,932,769 (+)Ensemblpanpan1.1panPan2
CPSF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1610,131,129 - 10,151,562 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl610,131,420 - 10,154,201 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha611,756,345 - 11,777,092 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0610,131,266 - 10,151,767 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl610,119,467 - 10,151,761 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1610,000,074 - 10,020,532 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.069,979,738 - 10,000,228 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0610,213,542 - 10,234,045 (-)NCBIUU_Cfam_GSD_1.0
Cpsf4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344138,229,267 - 138,245,733 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367501,699,521 - 1,719,423 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367501,699,738 - 1,715,993 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CPSF4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl36,374,341 - 6,388,661 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.136,374,346 - 6,388,662 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.236,664,657 - 6,679,271 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CPSF4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12813,708,239 - 13,726,502 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2813,708,247 - 13,726,492 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660702,578,389 - 2,596,146 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000024279   ⟹   ENSHGLP00000024060
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462474032,860,137 - 32,876,878 (+)Ensembl
Ensembl Acc Id: ENSHGLT00000024280   ⟹   ENSHGLP00000024061
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462474032,860,310 - 32,876,026 (+)Ensembl
RefSeq Acc Id: XM_004840511   ⟹   XP_004840568
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474032,860,217 - 32,876,878 (+)NCBI
RefSeq Acc Id: XM_004840514   ⟹   XP_004840571
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474032,860,217 - 32,876,878 (+)NCBI
RefSeq Acc Id: XM_004840515   ⟹   XP_004840572
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474032,860,217 - 32,876,878 (+)NCBI
RefSeq Acc Id: XM_021254841   ⟹   XP_021110500
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474032,860,217 - 32,876,878 (+)NCBI
RefSeq Acc Id: XM_021254842   ⟹   XP_021110501
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474032,860,217 - 32,871,777 (+)NCBI
RefSeq Acc Id: XP_021110500   ⟸   XM_021254841
- Peptide Label: isoform X1
- UniProtKB: A0AAX6SRG3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004840568   ⟸   XM_004840511
- Peptide Label: isoform X2
- UniProtKB: A0A0P6JB34 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004840571   ⟸   XM_004840514
- Peptide Label: isoform X3
- UniProtKB: A0AAX6NZP2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004840572   ⟸   XM_004840515
- Peptide Label: isoform X4
- UniProtKB: A0AAX6NZL6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021110501   ⟸   XM_021254842
- Peptide Label: isoform X5
- UniProtKB: A0AAX6SM35 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000024060   ⟸   ENSHGLT00000024279
Ensembl Acc Id: ENSHGLP00000024061   ⟸   ENSHGLT00000024280


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000017150 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000024279 ENTREZGENE, UniProtKB/TrEMBL
  ENSHGLT00000024280 ENTREZGENE
Gene3D-CATH 3.30.1370.210 UniProtKB/TrEMBL
  Zinc finger, CCCH-type UniProtKB/TrEMBL
  Zinc finger, CCHC-type UniProtKB/TrEMBL
InterPro CPSF4/Yth1 UniProtKB/TrEMBL
  Znf-CCCH_3 UniProtKB/TrEMBL
  Znf_CCCH UniProtKB/TrEMBL
  Znf_CCCH_sf UniProtKB/TrEMBL
  Znf_CCHC UniProtKB/TrEMBL
  Znf_CCHC_sf UniProtKB/TrEMBL
KEGG Report hgl:101698559 UniProtKB/TrEMBL
NCBI Gene Cpsf4 ENTREZGENE
PANTHER CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR SUBUNIT 4 UniProtKB/TrEMBL
  PTHR23102 UniProtKB/TrEMBL
Pfam zf-CCCH UniProtKB/TrEMBL
  zf-CCCH_3 UniProtKB/TrEMBL
  zf-CCHC UniProtKB/TrEMBL
PROSITE ZF_C3H1 UniProtKB/TrEMBL
  ZF_CCHC UniProtKB/TrEMBL
SMART ZnF_C2HC UniProtKB/TrEMBL
  ZnF_C3H1 UniProtKB/TrEMBL
Superfamily-SCOP SSF57756 UniProtKB/TrEMBL
  SSF90229 UniProtKB/TrEMBL
UniProt A0A0P6JB34 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6NZL6 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6NZP2 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SM35 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SRG3 ENTREZGENE, UniProtKB/TrEMBL