Pabpc1 (poly(A) binding protein cytoplasmic 1) - Rat Genome Database

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Gene: Pabpc1 (poly(A) binding protein cytoplasmic 1) Chinchilla lanigera
Analyze
Symbol: Pabpc1
Name: poly(A) binding protein cytoplasmic 1
RGD ID: 8808359
Description: ENCODES a protein that exhibits mRNA 3'-UTR binding (ortholog); mRNA binding (ortholog); poly(A) binding (ortholog); INVOLVED IN CRD-mediated mRNA stabilization (ortholog); negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (ortholog); negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (ortholog); PARTICIPATES IN microRNA pathway; translation initiation pathway; ASSOCIATED WITH Breast Neoplasms (ortholog); Cohen syndrome (ortholog); COVID-19 (ortholog); FOUND IN catalytic step 2 spliceosome (ortholog); cell leading edge (ortholog); cytoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: poly(A) binding protein, cytoplasmic 1; polyadenylate-binding protein 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541715,868,934 - 15,885,247 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541715,872,906 - 15,885,246 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Pabpc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541715,868,934 - 15,885,247 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541715,872,906 - 15,885,246 (-)NCBIChiLan1.0ChiLan1.0
PABPC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388100,702,916 - 100,722,088 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl8100,685,816 - 100,722,809 (-)EnsemblGRCh38hg38GRCh38
GRCh378101,715,144 - 101,734,316 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368101,784,320 - 101,803,491 (-)NCBINCBI36Build 36hg18NCBI36
Build 348101,784,319 - 101,803,491NCBI
Celera897,900,528 - 97,919,706 (-)NCBICelera
Cytogenetic Map8q22.3NCBI
HuRef896,913,861 - 96,933,038 (-)NCBIHuRef
CHM1_18101,755,929 - 101,775,103 (-)NCBICHM1_1
T2T-CHM13v2.08101,828,977 - 101,848,145 (-)NCBIT2T-CHM13v2.0
Pabpc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391536,595,902 - 36,609,825 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1536,595,905 - 36,609,912 (-)EnsemblGRCm39 Ensembl
GRCm381536,595,658 - 36,609,581 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1536,595,661 - 36,609,668 (-)EnsemblGRCm38mm10GRCm38
MGSCv371536,525,413 - 36,538,728 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361536,540,252 - 36,553,551 (-)NCBIMGSCv36mm8
Celera1537,216,852 - 37,230,173 (-)NCBICelera
Cytogenetic Map15B3.1NCBI
cM Map1514.51NCBI
Pabpc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8769,662,513 - 69,674,806 (-)NCBIGRCr8
mRatBN7.2767,777,438 - 67,789,731 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl767,777,381 - 67,789,744 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx769,665,830 - 69,678,123 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0771,868,434 - 71,880,727 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0771,736,315 - 71,748,608 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0775,409,581 - 75,421,874 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl775,409,581 - 75,422,268 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0775,557,634 - 75,569,927 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4772,116,140 - 72,128,433 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1772,136,510 - 72,149,407 (-)NCBI
Celera764,857,404 - 64,869,695 (-)NCBICelera
Cytogenetic Map7q22NCBI
PABPC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27118,056,637 - 118,076,633 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1893,592,669 - 93,612,674 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0897,346,433 - 97,365,628 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1899,518,347 - 99,534,284 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl899,518,347 - 99,537,614 (-)Ensemblpanpan1.1panPan2
PABPC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1132,563,698 - 2,580,610 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl132,564,065 - 2,580,368 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha132,560,662 - 2,577,627 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0132,717,070 - 2,734,072 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl132,687,294 - 2,837,742 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1132,561,235 - 2,578,211 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0132,672,912 - 2,689,894 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0132,690,335 - 2,707,304 (-)NCBIUU_Cfam_GSD_1.0
Pabpc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530335,202,647 - 35,244,212 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647042,628,667 - 42,643,347 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647042,628,890 - 42,670,311 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PABPC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl436,209,164 - 36,228,073 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1436,137,644 - 36,228,075 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2439,133,409 - 39,152,542 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PABPC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1895,560,551 - 95,578,627 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl895,561,930 - 95,578,633 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603945,104,972 - 45,123,828 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pabpc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247637,550,307 - 7,567,918 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247637,552,541 - 7,568,047 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSCLAT00000014163   ⟹   ENSCLAP00000014006
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541715,868,934 - 15,885,247 (-)Ensembl
RefSeq Acc Id: XM_005381871   ⟹   XP_005381928
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541715,872,906 - 15,885,246 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005381928 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000014006
  ENSCLAP00000014006.1
RefSeq Acc Id: XP_005381928   ⟸   XM_005381871
- UniProtKB: A0A8C2YPM1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000014006   ⟸   ENSCLAT00000014163
Protein Domains
PABC   RRM


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000009676 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000014163 ENTREZGENE
  ENSCLAT00000014163.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
  c-terminal domain of poly(a) binding protein UniProtKB/TrEMBL
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  PABP-dom UniProtKB/TrEMBL
  PABP_1234 UniProtKB/TrEMBL
  PABP_HYD UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM2_I_PABPs UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
  RRM_dom_euk UniProtKB/TrEMBL
NCBI Gene Pabpc1 ENTREZGENE
PANTHER POLYADENYLATE-BINDING PROTEIN 1 UniProtKB/TrEMBL
  RNA BINDING PROTEIN UniProtKB/TrEMBL
Pfam PABP UniProtKB/TrEMBL
  RRM_1 UniProtKB/TrEMBL
PROSITE PABC UniProtKB/TrEMBL
  RRM UniProtKB/TrEMBL
SMART PolyA UniProtKB/TrEMBL
  RRM UniProtKB/TrEMBL
  RRM_1 UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
  SSF63570 UniProtKB/TrEMBL
UniProt A0A8C2YPM1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Pabpc1  poly(A) binding protein cytoplasmic 1    poly(A) binding protein, cytoplasmic 1  Symbol and/or name change 5135510 APPROVED