Cpsf6 (cleavage and polyadenylation specific factor 6) - Rat Genome Database

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Gene: Cpsf6 (cleavage and polyadenylation specific factor 6) Heterocephalus glaber
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Symbol: Cpsf6
Name: cleavage and polyadenylation specific factor 6
RGD ID: 18909341
Description: ENCODES a protein that exhibits exon-exon junction complex binding (ortholog); mRNA binding (ortholog); ribosomal large subunit binding (ortholog); INVOLVED IN co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway (ortholog); mRNA 3'-end processing (ortholog); mRNA alternative polyadenylation (ortholog); PARTICIPATES IN 3'-end pre-mRNA processing pathway; RNA polymerase II transcription termination pathway; FOUND IN cytoplasm (ortholog); interchromatin granule (ortholog); mRNA cleavage and polyadenylation specificity factor complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cleavage and polyadenylation specificity factor subunit 6
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_00462494856,246 - 84,051 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462494853,317 - 83,983 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


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


Genomics

Comparative Map Data
Cpsf6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462494856,246 - 84,051 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462494853,317 - 83,983 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
CPSF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381269,239,569 - 69,274,358 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1269,239,569 - 69,274,358 (+)EnsemblGRCh38hg38GRCh38
GRCh371269,633,349 - 69,668,138 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361267,919,667 - 67,951,290 (+)NCBINCBI36Build 36hg18NCBI36
Build 341267,919,666 - 67,951,290NCBI
Celera1269,297,148 - 69,331,977 (+)NCBICelera
Cytogenetic Map12q15NCBI
HuRef1266,694,597 - 66,717,839 (+)NCBIHuRef
CHM1_11269,601,666 - 69,636,525 (+)NCBICHM1_1
T2T-CHM13v2.01269,218,652 - 69,253,462 (+)NCBIT2T-CHM13v2.0
Cpsf6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910117,180,572 - 117,212,903 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl10117,180,578 - 117,215,920 (-)EnsemblGRCm39 Ensembl
GRCm3810117,344,667 - 117,376,998 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10117,344,673 - 117,380,015 (-)EnsemblGRCm38mm10GRCm38
MGSCv3710116,781,724 - 116,814,029 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3610116,752,317 - 116,781,059 (-)NCBIMGSCv36mm8
Celera10119,287,703 - 119,311,036 (-)NCBICelera
Cytogenetic Map10D2NCBI
cM Map1065.41NCBI
Cpsf6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8754,798,452 - 54,887,711 (-)NCBIGRCr8
mRatBN7.2752,956,589 - 53,001,783 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl752,956,589 - 52,988,122 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx754,863,307 - 54,894,827 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0757,066,409 - 57,097,929 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0756,844,294 - 56,875,817 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0760,385,688 - 60,417,661 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl760,385,688 - 60,416,925 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0760,387,688 - 60,432,254 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4756,658,291 - 56,689,892 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1756,684,035 - 56,711,179 (-)NCBI
Celera749,730,420 - 49,761,230 (-)NCBICelera
Cytogenetic Map7q22NCBI
Cpsf6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545815,677,645 - 15,708,011 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545815,684,040 - 15,708,011 (+)NCBIChiLan1.0ChiLan1.0
CPSF6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21077,253,688 - 77,286,086 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11277,251,962 - 77,286,894 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01266,750,301 - 66,785,104 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11269,537,904 - 69,562,570 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1269,535,302 - 69,550,789 (+)Ensemblpanpan1.1panPan2
CPSF6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11011,265,044 - 11,297,395 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1011,262,265 - 11,292,832 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1011,192,974 - 11,229,102 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01011,384,373 - 11,420,547 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1011,387,159 - 11,420,524 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11011,251,450 - 11,287,708 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01011,498,596 - 11,534,738 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01011,620,546 - 11,656,791 (+)NCBIUU_Cfam_GSD_1.0
Cpsf6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494547,032,412 - 47,064,888 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365457,045,043 - 7,077,736 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365457,045,043 - 7,077,710 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CPSF6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl533,525,689 - 33,555,226 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1533,525,668 - 33,559,941 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2536,157,912 - 36,194,879 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CPSF6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11164,859,701 - 64,894,144 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1164,859,718 - 64,882,269 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037180,805,605 - 180,840,076 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000001025   ⟹   ENSHGLP00000000984
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462494856,246 - 84,051 (-)Ensembl
Ensembl Acc Id: ENSHGLT00000001026   ⟹   ENSHGLP00000000985
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462494856,246 - 84,051 (-)Ensembl
RefSeq Acc Id: XM_004875036   ⟹   XP_004875093
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462494853,317 - 83,983 (-)NCBI
RefSeq Acc Id: XM_013069386   ⟹   XP_012924840
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462494853,317 - 83,983 (-)NCBI
RefSeq Acc Id: XM_021252358   ⟹   XP_021108017
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462494853,317 - 83,983 (-)NCBI
RefSeq Acc Id: XM_021252359   ⟹   XP_021108018
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462494859,979 - 83,983 (-)NCBI
RefSeq Acc Id: XM_021252360   ⟹   XP_021108019
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462494853,317 - 83,983 (-)NCBI
RefSeq Acc Id: XP_004875093   ⟸   XM_004875036
- Peptide Label: isoform X4
- UniProtKB: A0A0P6K5J3 (UniProtKB/TrEMBL),   G5BBG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021108019   ⟸   XM_021252360
- Peptide Label: isoform X3
- UniProtKB: G5BBG5 (UniProtKB/TrEMBL),   A0AAX6SGV1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012924840   ⟸   XM_013069386
- Peptide Label: isoform X2
- UniProtKB: G5BBG5 (UniProtKB/TrEMBL),   A0AAX6QNW4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021108017   ⟸   XM_021252358
- Peptide Label: isoform X1
- UniProtKB: A0AAX6SGK8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021108018   ⟸   XM_021252359
- Peptide Label: isoform X1
- UniProtKB: A0AAX6SGK8 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000000984   ⟸   ENSHGLT00000001025
Ensembl Acc Id: ENSHGLP00000000985   ⟸   ENSHGLT00000001026


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000000792 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000001025 ENTREZGENE
  ENSHGLT00000001026 ENTREZGENE
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
InterPro CPSF6 UniProtKB/TrEMBL
  CPSF6/7 UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
KEGG Report hgl:101723861 UniProtKB/TrEMBL
NCBI Gene Cpsf6 ENTREZGENE
PANTHER PTHR23204 UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/TrEMBL
PROSITE RRM UniProtKB/TrEMBL
SMART RRM UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
UniProt A0A0P6K5J3 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6QNW4 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SGK8 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SGV1 ENTREZGENE, UniProtKB/TrEMBL
  G5BBG5 ENTREZGENE, UniProtKB/TrEMBL