Pabpc1l2a (poly(A) binding protein, cytoplasmic 1-like 2A) - Rat Genome Database

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Gene: Pabpc1l2a (poly(A) binding protein, cytoplasmic 1-like 2A) Rattus norvegicus
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Symbol: Pabpc1l2a
Name: poly(A) binding protein, cytoplasmic 1-like 2A
RGD ID: 1566367
Description: Orthologous to human PABPC1L2A (poly(A) binding protein cytoplasmic 1 like 2A); PARTICIPATES IN mRNA decay pathway; RNA degradation pathway; RNA transport pathway; INTERACTS WITH bisphenol A; aflatoxin B1 (ortholog); benzo[a]pyrene (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical LOC302405; LOC302405; Pabpc1l2b; poly(A) binding protein, cytoplasmic 1-like 2B; polyadenylate-binding protein 1-like 2; Rbm32b; RGD1566367; RNA binding motif protein 32B
RGD Orthologs
Human
Bonobo
Dog
Squirrel
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X72,063,772 - 72,066,435 (+)NCBIGRCr8
mRatBN7.2X68,023,845 - 68,026,508 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_UtxX69,507,184 - 69,509,847 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X73,007,416 - 73,010,079 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X70,568,586 - 70,571,250 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X73,894,603 - 73,895,742 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X74,699,593 - 74,700,719 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X90,938,151 - 90,946,798 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX69,437,076 - 69,438,215 (-)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pabpc1l2aRatautistic disorder  ISOPABPC1L2A (Homo sapiens)8554872ClinVar Annotator: match by term: AutismClinVarPMID:21681106 and PMID:30208311
Pabpc1l2aRatautosomal hemophilia A  ISOPABPC1L2A (Homo sapiens)8554872ClinVar Annotator: match by term: AUTOSOMAL HEMOPHILIA AClinVarPMID:31690835
Pabpc1l2aRatCornelia de Lange syndrome 5  ISOPABPC1L2A (Homo sapiens)8554872ClinVar Annotator: match by term: Cornelia de Lange syndrome 5ClinVarPMID:24403048
Pabpc1l2aRatfactor VIII deficiency  ISOPABPC1L2A (Homo sapiens)8554872ClinVar Annotator: match by term: Factor 8 deficiency and congenitalClinVarPMID:31690835
Pabpc1l2aRatsyndromic X-linked intellectual disability Lubs type  ISOPABPC1L2A (Homo sapiens)8554872ClinVar Annotator: match by term: Syndromic X-linked intellectual disability Lubs typeClinVarPMID:25741868


  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pabpc1l2aRataflatoxin B1 decreases methylationISOPABPC1L2A (Homo sapiens)6480464Aflatoxin B1 results in decreased methylation of PABPC1L2A geneCTDPMID:27153756
Pabpc1l2aRatbenzo[a]pyrene decreases methylationISOPABPC1L2A (Homo sapiens)6480464Benzo(a)pyrene results in decreased methylation of PABPC1L2A 3' UTRCTDPMID:27901495
Pabpc1l2aRatbisphenol A decreases expressionEXP 6480464bisphenol A results in decreased expression of PABPC1L2A mRNACTDPMID:30816183
Pabpc1l2aRatethylparaben decreases expressionISOPABPC1L2A (Homo sapiens)6480464ethyl-p-hydroxybenzoate results in decreased expression of PABPC1L2A mRNACTDPMID:37690743
Pabpc1l2aRatvalproic acid increases methylationISOPABPC1L2A (Homo sapiens)6480464Valproic Acid results in increased methylation of PABPC1L2A geneCTDPMID:29154799


Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pabpc1l2aRatcytoplasmic stress granule is_active_inIBAPANTHER:PTN000610046 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Pabpc1l2aRatcytosol is_active_inIBAPANTHER:PTN000610044 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Pabpc1l2aRatnucleus is_active_inIBAFB:FBgn0264270 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Pabpc1l2aRatribonucleoprotein complex part_ofIBAFB:FBgn0265297 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pabpc1l2aRatmRNA 3'-UTR binding enablesIBAFB:FBgn0264270 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Pabpc1l2aRatnucleic acid binding enablesIEAInterPro:IPR0359791600115GO_REF:0000002InterProGO_REF:0000002
Pabpc1l2aRatpoly(A) binding enablesIBAFB:FBgn0265297 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Pabpc1l2aRatpoly(U) RNA binding enablesIBAFB:FBgn0264270 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Pabpc1l2aRatRNA binding enablesIEAUniProtKB-KW:KW-06941600115GO_REF:0000043UniProtGO_REF:0000043
Pabpc1l2aRatRNA binding enablesIEAUniRule:UR0004146191600115GO_REF:0000104UniProtGO_REF:0000104
Pabpc1l2aRatRNA binding enablesIEAInterPro:IPR0005041600115GO_REF:0000002InterProGO_REF:0000002

Imported Annotations - KEGG (archival)

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pabpc1l2aRatmRNA decay pathway  IEA 6907045 KEGGrno:03015
Pabpc1l2aRatRNA degradation pathway  IEA 6907045 KEGGrno:03018
Pabpc1l2aRatRNA transport pathway  IEA 6907045 KEGGrno:03013

#
Reference Title
Reference Citation
1. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
PMID:23533145  



Pabpc1l2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X72,063,772 - 72,066,435 (+)NCBIGRCr8
mRatBN7.2X68,023,845 - 68,026,508 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_UtxX69,507,184 - 69,509,847 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X73,007,416 - 73,010,079 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X70,568,586 - 70,571,250 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X73,894,603 - 73,895,742 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X74,699,593 - 74,700,719 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X90,938,151 - 90,946,798 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX69,437,076 - 69,438,215 (-)NCBICelera
Cytogenetic MapXq22NCBI
PABPC1L2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X73,077,276 - 73,079,512 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX73,077,276 - 73,079,512 (-)EnsemblGRCh38hg38GRCh38
GRCh37X72,297,115 - 72,299,351 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X72,213,840 - 72,216,076 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX72,575,847 - 72,577,973 (-)NCBICelera
Cytogenetic MapXq13.2NCBI
HuRefX65,931,942 - 65,934,114 (-)NCBIHuRef
CHM1_1X72,189,732 - 72,191,906 (-)NCBICHM1_1
T2T-CHM13v2.0X71,510,785 - 71,513,019 (-)NCBIT2T-CHM13v2.0
LOC100976163
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X72,673,775 - 72,676,236 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X72,676,971 - 72,679,844 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X62,242,922 - 62,246,300 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X72,365,306 - 72,367,599 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX72,365,551 - 72,366,153 (+)Ensemblpanpan1.1panPan2
PABPC1L2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_TashaX48,126,110 - 48,127,623 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X58,158,827 - 58,159,767 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X55,864,784 - 55,868,381 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X57,484,819 - 57,485,923 (-)NCBIUNSW_CanFamBas_1.0
Pabpc1l2a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X45,015,094 - 45,017,006 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493750812 - 2,177 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PABPC1L2A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X58,851,255 - 58,852,978 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X66,807,059 - 66,809,513 (+)NCBISscrofa10.2Sscrofa10.2susScr3

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Variants in Pabpc1l2a
5 total Variants

The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
RefSeq Transcripts NM_001401124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006227403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: NM_001401124   ⟹   NP_001388053
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X72,063,772 - 72,066,435 (+)NCBI
mRatBN7.2X68,023,845 - 68,026,508 (+)NCBI
Protein RefSeqs NP_001388053 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000081673.1
  ENSRNOP00000103707
RefSeq Acc Id: NP_001388053   ⟸   NM_001401124
- UniProtKB: A0A8I5ZSJ2 (UniProtKB/TrEMBL)
RRM


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen



1 to 21 of 21 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-2044 BioCyc
Ensembl Genes ENSRNOG00000022267 UniProtKB/TrEMBL
  ENSRNOG00000080500 ENTREZGENE
Ensembl Transcript ENSRNOT00000029100.6 UniProtKB/TrEMBL
  ENSRNOT00000171841 ENTREZGENE
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  PABP_RRM1 UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM2_I_PABPs UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
NCBI Gene 302405 ENTREZGENE
PANTHER RNA BINDING PROTEIN UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/TrEMBL
PhenoGen Pabpc1l2a PhenoGen
PROSITE RRM UniProtKB/TrEMBL
RatGTEx ENSRNOG00000022267 RatGTEx
  ENSRNOG00000080500 RatGTEx
SMART RRM UniProtKB/TrEMBL
Superfamily-SCOP RNA-binding domain, RBD UniProtKB/TrEMBL
UniProt A0A8I5ZSJ2 ENTREZGENE, UniProtKB/TrEMBL
1 to 21 of 21 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-02-27 Pabpc1l2a  poly(A) binding protein, cytoplasmic 1-like 2A  Pabpc1l2b  poly(A) binding protein, cytoplasmic 1-like 2B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-25 Pabpc1l2b  poly(A) binding protein, cytoplasmic 1-like 2B  Rbm32b  RNA binding motif protein 32B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Rbm32b  RNA binding motif protein 32B  RGD1566367_predicted  RGD1566367 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1566367_predicted  RGD1566367 (predicted)  LOC302405  hypothetical LOC302405  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC302405  hypothetical LOC302405      Symbol and Name status set to provisional 70820 PROVISIONAL