Pcf11 (PCF11 cleavage and polyadenylation factor subunit) - Rat Genome Database

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Gene: Pcf11 (PCF11 cleavage and polyadenylation factor subunit) Ictidomys tridecemlineatus
Analyze
Symbol: Pcf11
Name: PCF11 cleavage and polyadenylation factor subunit
RGD ID: 12727152
Description: ENCODES a protein that exhibits mRNA binding (inferred); RNA polymerase II complex binding (inferred); INVOLVED IN mRNA 3'-end processing (inferred); termination of RNA polymerase II transcription (inferred); PARTICIPATES IN 3'-end pre-mRNA processing pathway; RNA polymerase II transcription termination pathway; ASSOCIATED WITH acute megakaryocytic leukemia (ortholog); intellectual disability (ortholog); FOUND IN nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: PCF11 cleavage and polyadenylation factor subunit, transcript variant X1; PCF11 cleavage and polyadenylation factor subunit, transcript variant X2; PCF11, cleavage and polyadenylation factor subunit; pre-mRNA cleavage complex 2 protein Pcf11
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494769,708,045 - 69,734,089 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649811,307,568 - 11,337,596 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649811,307,644 - 11,333,692 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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
Pcf11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494769,708,045 - 69,734,089 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649811,307,568 - 11,337,596 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649811,307,644 - 11,333,692 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCF11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381183,157,131 - 83,187,451 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1183,156,988 - 83,187,451 (+)EnsemblGRCh38hg38GRCh38
GRCh371182,868,173 - 82,898,493 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361182,545,785 - 82,574,484 (+)NCBINCBI36Build 36hg18NCBI36
Celera1180,177,801 - 80,206,501 (+)NCBICelera
Cytogenetic Map11q14.1NCBI
HuRef1179,165,274 - 79,194,104 (+)NCBIHuRef
CHM1_11182,752,298 - 82,780,979 (+)NCBICHM1_1
T2T-CHM13v2.01183,093,603 - 83,123,924 (+)NCBIT2T-CHM13v2.0
Pcf11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39792,292,666 - 92,319,284 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl792,292,751 - 92,319,142 (-)EnsemblGRCm39 Ensembl
GRCm38792,643,458 - 92,670,080 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl792,643,543 - 92,669,934 (-)EnsemblGRCm38mm10GRCm38
MGSCv37799,792,222 - 99,818,422 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36792,519,447 - 92,545,076 (-)NCBIMGSCv36mm8
Celera789,935,174 - 89,961,010 (-)NCBICelera
Cytogenetic Map7E1NCBI
cM Map751.56NCBI
Pcf11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81156,109,724 - 156,136,950 (-)NCBIGRCr8
mRatBN7.21146,694,045 - 146,724,030 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1146,697,646 - 146,724,124 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01157,463,014 - 157,494,134 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1157,468,626 - 157,494,008 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01163,711,941 - 163,738,274 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41149,474,824 - 149,501,334 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1144,872,077 - 144,903,151 (-)NCBICelera
Cytogenetic Map1q32NCBI
Pcf11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554149,402,818 - 9,428,501 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554149,401,919 - 9,428,501 (-)NCBIChiLan1.0ChiLan1.0
PCF11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2984,087,368 - 84,116,105 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11185,138,157 - 85,166,869 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01178,220,710 - 78,249,276 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11181,832,382 - 81,860,964 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1181,832,383 - 81,860,958 (+)Ensemblpanpan1.1panPan2
PCF11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12116,006,022 - 16,028,369 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2116,006,749 - 16,028,021 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2115,881,943 - 15,906,444 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02116,192,096 - 16,216,602 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2116,192,111 - 16,216,463 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12115,967,967 - 15,992,475 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02116,047,442 - 16,071,996 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02116,117,486 - 16,142,039 (-)NCBIUU_Cfam_GSD_1.0
PCF11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl917,297,861 - 17,324,710 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1917,297,867 - 17,324,721 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2919,211,766 - 19,238,640 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCF11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1174,350,577 - 74,379,284 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl174,350,609 - 74,378,374 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604351,319,177 - 51,347,963 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcf11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248456,712,408 - 6,736,773 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248456,712,401 - 6,736,778 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000005528   ⟹   ENSSTOP00000004945
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493649811,307,568 - 11,337,596 (+)Ensembl
RefSeq Acc Id: XM_005323257   ⟹   XP_005323314
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494769,708,045 - 69,734,089 (+)NCBI
SpeTri2.0NW_00493649811,307,644 - 11,333,692 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013357679   ⟹   XP_013213133
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494769,708,045 - 69,734,089 (+)NCBI
SpeTri2.0NW_00493649811,307,644 - 11,333,102 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005323314 (Get FASTA)   NCBI Sequence Viewer  
  XP_013213133 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000004945.3
GenBank Protein KAG3286238 (Get FASTA)   NCBI Sequence Viewer  
  KAG3286239 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005323314   ⟸   XM_005323257
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013213133   ⟸   XM_013357679
- Peptide Label: isoform X1
- UniProtKB: I3M682 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000004945   ⟸   ENSSTOT00000005528
Protein Domains
CID


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000005515 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000005528.3 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.90 UniProtKB/TrEMBL
InterPro CID_dom UniProtKB/TrEMBL
  CID_Pcf11 UniProtKB/TrEMBL
  ENTH_VHS UniProtKB/TrEMBL
  PCF11-like UniProtKB/TrEMBL
  PCF11_charged UniProtKB/TrEMBL
  Pcf11_Clp1-ID UniProtKB/TrEMBL
  PCF11_helical UniProtKB/TrEMBL
  PCF11_RFEG_rpt UniProtKB/TrEMBL
NCBI Gene Pcf11 ENTREZGENE
PANTHER PRE-MRNA CLEAVAGE COMPLEX 2 PROTEIN PCF11 UniProtKB/TrEMBL
  PTHR15921 UniProtKB/TrEMBL
Pfam CFIA_Pcf11 UniProtKB/TrEMBL
  CID UniProtKB/TrEMBL
  PCF11_charged UniProtKB/TrEMBL
  Pcf11_helical UniProtKB/TrEMBL
  PCF11_RFEG_rpt UniProtKB/TrEMBL
PROSITE CID UniProtKB/TrEMBL
SMART RPR UniProtKB/TrEMBL
Superfamily-SCOP SSF48464 UniProtKB/TrEMBL
UniProt I3M682 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-01-29 Pcf11  PCF11 cleavage and polyadenylation factor subunit    PCF11, cleavage and polyadenylation factor subunit  Symbol and/or name change 5135510 APPROVED
2018-05-01 Pcf11  PCF11, cleavage and polyadenylation factor subunit    PCF11 cleavage and polyadenylation factor subunit  Symbol and/or name change 5135510 APPROVED