PCIF1 (phosphorylated CTD interacting factor 1) - Rat Genome Database

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Gene: PCIF1 (phosphorylated CTD interacting factor 1) Pan paniscus
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Symbol: PCIF1
Name: phosphorylated CTD interacting factor 1
RGD ID: 11881978
Description: ENCODES a protein that exhibits mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity (inferred); RNA polymerase II C-terminal domain binding (inferred); RNA polymerase II C-terminal domain phosphoserine binding (inferred); INVOLVED IN mRNA processing (ortholog); regulation of translation (ortholog); ASSOCIATED WITH focal epilepsy (ortholog); T-Cell Immunodeficiency, Recurrent Infections, and Autoimmunity with or without Cardiac Malformations (ortholog); FOUND IN intercellular bridge (inferred); microtubule cytoskeleton (inferred); nucleoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: mRNA (2'-O-methyladenosine-N(6)-)-methyltransferase; PDX1 C-terminal inhibiting factor 1; phosphorylated CTD-interacting factor 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22151,676,010 - 51,689,424 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12051,669,169 - 51,682,535 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02042,273,443 - 42,286,885 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12043,360,219 - 43,373,956 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2043,360,219 - 43,374,593 (+)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
PCIF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22151,676,010 - 51,689,424 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12051,669,169 - 51,682,535 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02042,273,443 - 42,286,885 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12043,360,219 - 43,373,956 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2043,360,219 - 43,374,593 (+)Ensemblpanpan1.1panPan2
PCIF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382045,934,683 - 45,948,020 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2045,934,683 - 45,948,023 (+)EnsemblGRCh38hg38GRCh38
GRCh372044,563,322 - 44,576,659 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362043,996,724 - 44,010,069 (+)NCBINCBI36Build 36hg18NCBI36
Build 342043,996,723 - 44,010,067NCBI
Celera2041,274,773 - 41,288,119 (+)NCBICelera
Cytogenetic Map20q13.12NCBI
HuRef2041,304,981 - 41,318,131 (+)NCBIHuRef
CHM1_12044,466,000 - 44,479,319 (+)NCBICHM1_1
T2T-CHM13v2.02047,670,740 - 47,684,073 (+)NCBIT2T-CHM13v2.0
Pcif1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392164,721,288 - 164,733,360 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2164,721,224 - 164,736,374 (+)EnsemblGRCm39 Ensembl
GRCm382164,879,368 - 164,891,440 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2164,879,304 - 164,894,454 (+)EnsemblGRCm38mm10GRCm38
MGSCv372164,704,868 - 164,716,937 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362164,570,573 - 164,582,642 (+)NCBIMGSCv36mm8
Celera2170,816,601 - 170,828,684 (+)NCBICelera
Cytogenetic Map2H3NCBI
cM Map285.27NCBI
Pcif1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83174,033,471 - 174,046,403 (+)NCBIGRCr8
mRatBN7.23153,614,147 - 153,627,079 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3153,614,147 - 153,627,079 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3157,422,576 - 157,435,503 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03165,921,550 - 165,934,477 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03163,665,323 - 163,678,250 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03161,343,883 - 161,356,815 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3161,343,883 - 161,356,815 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03167,528,503 - 167,541,435 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43155,914,227 - 155,927,159 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13155,821,464 - 155,833,176 (+)NCBI
Celera3152,219,717 - 152,232,649 (+)NCBICelera
Cytogenetic Map3q42NCBI
Pcif1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544511,355,227 - 11,368,392 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544511,355,227 - 11,368,392 (-)NCBIChiLan1.0ChiLan1.0
PCIF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12433,214,370 - 33,225,922 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2433,214,419 - 33,226,732 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2432,740,403 - 32,752,784 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02433,923,867 - 33,936,241 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2433,924,726 - 33,936,276 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12433,182,148 - 33,194,524 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02433,297,465 - 33,309,839 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02433,836,439 - 33,848,821 (+)NCBIUU_Cfam_GSD_1.0
Pcif1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640191,636,744 - 191,645,564 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365147,091,140 - 7,103,124 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365147,090,367 - 7,103,124 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCIF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1748,120,599 - 48,132,620 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11748,120,263 - 48,132,003 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21753,760,285 - 53,771,889 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCIF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1217,938,156 - 17,953,289 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl217,938,423 - 17,948,425 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605066,573,899 - 66,586,931 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcif1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247908,647,317 - 8,660,080 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247908,647,292 - 8,660,138 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSPPAT00000047995   ⟹   ENSPPAP00000025168
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2043,360,219 - 43,373,956 (+)Ensembl
RefSeq Acc Id: ENSPPAT00000048002   ⟹   ENSPPAP00000025175
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl2043,364,595 - 43,374,593 (+)Ensembl
RefSeq Acc Id: XM_003825996   ⟹   XP_003826044
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22151,676,010 - 51,689,424 (+)NCBI
NHGRI_mPanPan12051,669,169 - 51,682,535 (+)NCBI
Mhudiblu_PPA_v02042,273,443 - 42,286,885 (+)NCBI
PanPan1.12043,360,219 - 43,373,956 (+)NCBI
Sequence:
RefSeq Acc Id: XM_055105062   ⟹   XP_054961037
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22151,676,061 - 51,689,424 (+)NCBI
NHGRI_mPanPan12051,669,169 - 51,682,535 (+)NCBI
Protein Sequences
Protein RefSeqs XP_003826044 (Get FASTA)   NCBI Sequence Viewer  
  XP_054961037 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000025168
  ENSPPAP00000025168.1
  ENSPPAP00000025175.1
RefSeq Acc Id: XP_003826044   ⟸   XM_003825996
- UniProtKB: A0A2R9B6G1 (UniProtKB/TrEMBL),   A0A2R9BA74 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSPPAP00000025175   ⟸   ENSPPAT00000048002
RefSeq Acc Id: ENSPPAP00000025168   ⟸   ENSPPAT00000047995
RefSeq Acc Id: XP_054961037   ⟸   XM_055105062
- UniProtKB: A0A2R9B6G1 (UniProtKB/TrEMBL)
Protein Domains
WW


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000035703 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000047995.1 UniProtKB/TrEMBL
  ENSPPAT00000048002.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1270.10 UniProtKB/TrEMBL
  2.20.70.10 UniProtKB/TrEMBL
InterPro HSP70_C_sf UniProtKB/TrEMBL
  PCIF1-like UniProtKB/TrEMBL
  PCIF1_WW UniProtKB/TrEMBL
  WW_dom UniProtKB/TrEMBL
  WW_dom_sf UniProtKB/TrEMBL
KEGG Report pps:100972648 UniProtKB/TrEMBL
NCBI Gene PCIF1 ENTREZGENE
PANTHER MRNA (2'-O-METHYLADENOSINE-N(6)-)-METHYLTRANSFERASE UniProtKB/TrEMBL
  PTHR21727 UniProtKB/TrEMBL
Pfam PCIF1_WW UniProtKB/TrEMBL
  PF00397 UniProtKB/TrEMBL
PROSITE WW_DOMAIN_2 UniProtKB/TrEMBL
SMART SM00456 UniProtKB/TrEMBL
Superfamily-SCOP SSF51045 UniProtKB/TrEMBL
UniProt A0A2R9B6G1 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R9BA74 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-09-01 PCIF1  phosphorylated CTD interacting factor 1  PCIF1  PDX1 C-terminal inhibiting factor 1  Symbol and/or name change 5135510 APPROVED