Vpreb1a (V-set pre-B cell surrogate light chain 1A) - Rat Genome Database

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Gene: Vpreb1a (V-set pre-B cell surrogate light chain 1A) Rattus norvegicus
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Symbol: Vpreb1a (Ensembl: Vpreb1b)
Name: V-set pre-B cell surrogate light chain 1A (Ensembl:V-set pre-B cell surrogate light chain 1B)
RGD ID: 1588558
Description: Predicted to enable signaling receptor activity. Predicted to be involved in immune response. Predicted to act upstream of or within several processes, including B cell homeostasis; B cell proliferation; and regulation of cell size. Predicted to be located in external side of plasma membrane. Predicted to be part of immunoglobulin complex. Orthologous to human VPREB1 (V-set pre-B cell surrogate light chain 1); INTERACTS WITH bisphenol A; 1,1-dichloroethene (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: immunoglobulin iota chain; Immunoglobulin lambda Vpreb1 chain; immunoglobulin omega chain-like; LOC100911573; pre-B lymphocyte 1; pre-B lymphocyte gene 1; pre-B lymphocyte gene 1 (mapped); similar to Immunoglobulin omega chain precursor (VpreB2 protein); V-set pre-B cell surrogate light chain 1; Vpreb1; Vpreb1_mapped
RGD Orthologs
Human
Mouse
Dog
Squirrel
Pig
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81197,631,174 - 97,632,051 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1197,629,102 - 97,632,051 (+)EnsemblGRCr8
mRatBN7.21184,126,969 - 84,127,846 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1184,126,969 - 84,127,846 (+)EnsemblmRatBN7.2
Rnor_6.01188,376,256 - 88,377,133 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1188,376,256 - 88,377,133 (+)Ensemblrn6Rnor6.0
Rnor_5.01191,363,848 - 91,364,672 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41186,146,891 - 86,147,768 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1182,881,602 - 82,882,479 (+)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. VpreB1/VpreB2/lambda 5 triple-deficient mice show impaired B cell development but functional allelic exclusion of the IgH locus. Shimizu T, etal., J Immunol 2002 Jun 15;168(12):6286-93.
Additional References at PubMed
PMID:1300510   PMID:8625987   PMID:10221657   PMID:15632090   PMID:15909309  


Genomics

Comparative Map Data
Vpreb1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81197,631,174 - 97,632,051 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1197,629,102 - 97,632,051 (+)EnsemblGRCr8
mRatBN7.21184,126,969 - 84,127,846 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1184,126,969 - 84,127,846 (+)EnsemblmRatBN7.2
Rnor_6.01188,376,256 - 88,377,133 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1188,376,256 - 88,377,133 (+)Ensemblrn6Rnor6.0
Rnor_5.01191,363,848 - 91,364,672 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41186,146,891 - 86,147,768 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1182,881,602 - 82,882,479 (+)NCBICelera
Cytogenetic Map11q23NCBI
VPREB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382222,244,786 - 22,245,515 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2222,244,780 - 22,245,515 (+)Ensemblhg38GRCh38
GRCh372222,599,198 - 22,599,927 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362220,929,200 - 20,929,926NCBIBuild 36Build 36hg18NCBI36
Build 342220,923,753 - 20,924,480NCBI
Celera226,416,633 - 6,417,359 (+)NCBICelera
Cytogenetic Map22q11.22ENTREZGENE
HuRef225,557,640 - 5,558,366 (+)NCBIHuRef
CHM1_12222,599,258 - 22,599,984 (+)NCBICHM1_1
T2T-CHM13v2.02222,658,325 - 22,659,054 (+)NCBIT2T-CHM13v2.0
Vpreb1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391616,686,265 - 16,687,119 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1616,686,267 - 16,688,707 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381616,868,401 - 16,869,255 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1616,868,403 - 16,870,843 (-)Ensemblmm10GRCm38
MGSCv371616,868,494 - 16,869,348 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361616,781,966 - 16,782,813 (-)NCBIMGSCv36mm8
Celera1617,440,311 - 17,441,165 (-)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1610.46NCBI
VPREB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12628,833,763 - 28,834,870 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2628,833,136 - 28,834,679 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2627,906,306 - 27,907,779 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02630,233,702 - 30,239,189 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2630,234,236 - 30,235,267 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12628,315,141 - 28,320,626 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02627,931,214 - 27,936,502 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02628,921,087 - 28,927,703 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Vpreb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118141,053,090 - 141,054,029 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366191,700,203 - 1,700,746 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366191,700,203 - 1,700,746 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPREB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1449,970,340 - 49,972,741 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11449,972,058 - 49,972,768 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21453,414,567 - 53,415,277 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Vpreb1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v142,152,833 - 2,153,666 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:331
Count of miRNA genes:219
Interacting mature miRNAs:242
Transcripts:ENSRNOT00000051934
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)117385089499753367Rat
4889859Pur28Proteinuria QTL 2819.50.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)115892833699753367Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)116796218499753367Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)117330831599753367Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)116985594399753367Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)117961851999753367Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
10 4 21 41 51 53 29 49 29 5 152 92 10 21 20 40 24

Sequence


Ensembl Acc Id: ENSRNOT00000002517   ⟹   ENSRNOP00000002517
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1196,513,694 - 96,514,504 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000081776   ⟹   ENSRNOP00000074866
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1184,126,969 - 84,127,846 (+)Ensembl
Rnor_6.0 Ensembl1188,376,256 - 88,377,133 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000135247   ⟹   ENSRNOP00000103977
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1196,513,682 - 96,514,888 (-)Ensembl
RefSeq Acc Id: NM_001108845   ⟹   NP_001102315
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81197,631,174 - 97,632,051 (+)NCBI
mRatBN7.21184,126,969 - 84,127,846 (+)NCBI
Rnor_6.01188,376,256 - 88,377,133 (+)NCBI
Rnor_5.01191,363,848 - 91,364,672 (+)NCBI
RGSC_v3.41186,146,891 - 86,147,768 (+)RGD
Celera1182,881,602 - 82,882,479 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102315 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL77863 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000074866
  ENSRNOP00000074866.1
  ENSRNOP00000099432.1
  ENSRNOP00000103977.1
RefSeq Acc Id: NP_001102315   ⟸   NM_001108845
- Peptide Label: precursor
- UniProtKB: D3Z922 (UniProtKB/TrEMBL),   A6JSP4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000074866   ⟸   ENSRNOT00000081776
Ensembl Acc Id: ENSRNOP00000103977   ⟸   ENSRNOT00000135247
Ensembl Acc Id: ENSRNOP00000002517   ⟸   ENSRNOT00000002517
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z922-F1-model_v2 AlphaFold D3Z922 1-136 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1588558 AgrOrtholog
BioCyc Gene G2FUF-20562 BioCyc
Ensembl Genes ENSRNOG00000001839 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000052348 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000081776 ENTREZGENE
  ENSRNOT00000081776.3 UniProtKB/TrEMBL
  ENSRNOT00000134427.1 UniProtKB/TrEMBL
  ENSRNOT00000135247.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  IgV_Light_Chain UniProtKB/TrEMBL
KEGG Report rno:303782 UniProtKB/TrEMBL
NCBI Gene 303782 ENTREZGENE
PANTHER IMMUNOGLOBULIN LIGHT CHAIN UniProtKB/TrEMBL
Pfam V-set UniProtKB/TrEMBL
PhenoGen Vpreb1a PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
  IG_MHC UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001839 RatGTEx
  ENSRNOG00000052348 RatGTEx
SMART IGv UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0ABK0L3Q6_RAT UniProtKB/TrEMBL
  A0ABK0LDE9_RAT UniProtKB/TrEMBL
  A6JSP4 ENTREZGENE, UniProtKB/TrEMBL
  A6JSP5_RAT UniProtKB/TrEMBL
  D3Z922 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-01-13 Vpreb1a  V-set pre-B cell surrogate light chain 1A  Vpreb1  V-set pre-B cell surrogate light chain 1  Name and Symbol changed 629549 APPROVED
2022-12-06 Vpreb1  V-set pre-B cell surrogate light chain 1  Vpreb1a  V-set pre-B cell surrogate light chain 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2022-11-28 Vpreb1a  V-set pre-B cell surrogate light chain 1A  Vpreb1  V-set pre-B cell surrogate light chain 1  Name and Symbol changed 629549 APPROVED
2017-03-27 Vpreb1  V-set pre-B cell surrogate light chain 1  Vpreb1  pre-B lymphocyte 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Vpreb1  pre-B lymphocyte 1  LOC100911573  immunoglobulin omega chain-like  Data merged from RGD:6491920 737654 PROVISIONAL
2013-05-24 Vpreb1  pre-B lymphocyte 1  LOC683117  similar to Immunoglobulin omega chain precursor (VpreB2 protein)  Data merged from RGD:1590449 1643240 APPROVED
2012-07-05 LOC100911573  immunoglobulin omega chain-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-10-23 Vpreb1  pre-B lymphocyte 1  Vpreb1  pre-B lymphocyte gene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-13   pre-B lymphocyte gene 1  Vpreb1  pre-B lymphocyte gene 1 (mapped)  Name updated 737654 APPROVED
2007-04-13 Vpreb1  pre-B lymphocyte gene 1 (mapped)  Vpreb1_mapped  pre-B lymphocyte gene 1 (mapped)  Data merged from RGD:3964 737654 APPROVED
2006-11-20 LOC683117  similar to Immunoglobulin omega chain precursor (VpreB2 protein)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 Vpreb1  pre-B lymphocyte gene 1 (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Vpreb1_mapped  pre-B lymphocyte gene 1 (mapped)      Symbol and Name updated 1556543 APPROVED
2003-04-09 Vpreb1  pre-B lymphocyte gene 1    Immunoglobulin lambda Vpreb1 chain  Name updated 629478 APPROVED
2002-06-10 Vpreb1  Immunoglobulin lambda Vpreb1 chain      Symbol and Name status set to approved 70586 APPROVED