RT1-B (RT1 class II, locus B) - Rat Genome Database

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Gene: RT1-B (RT1 class II, locus B) Rattus norvegicus
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No known orthologs.
Symbol: RT1-B
Name: RT1 class II, locus B
RGD ID: 3467
Description: Predicted to enable MHC class II protein complex binding activity and peptide antigen binding activity. Predicted to be involved in several processes, including antigen processing and presentation of exogenous peptide antigen via MHC class II; peptide antigen assembly with MHC class II protein complex; and positive regulation of T cell activation. Predicted to be located in cell surface and membrane. Predicted to be part of MHC class II protein complex. Predicted to be active in late endosome membrane and lysosomal membrane. Human ortholog(s) of this gene implicated in several diseases, including arthritis (multiple); autoimmune disease (multiple); bacterial infectious disease (multiple); hematologic cancer (multiple); and liver disease (multiple). Orthologous to human HLA-DQB1 (major histocompatibility complex, class II, DQ beta 1) and HLA-DQB2 (major histocompatibility complex, class II, DQ beta 2).
Type: protein-coding
Previously known as: rano class II histocompatibility antigen, A beta chain; RT1 class II histocompatibility antigen, A beta chain; RT1 region, class II (B); RT1 region, class II, locus B
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
NCBI Annotation Information: Genome Annotation Status: not in current annotation release
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Cytogenetic Map20 NCBI



Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

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. Genome-wide association study identifies HLA-DP as a susceptibility gene for pediatric asthma in Asian populations. Noguchi E, etal., PLoS Genet. 2011 Jul;7(7):e1002170. doi: 10.1371/journal.pgen.1002170. Epub 2011 Jul 21.
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Allergic and Nonallergic Asthma Have Distinct Phenotypic and Genotypic Features. Takejima P, etal., Int Arch Allergy Immunol. 2017;172(3):150-160. doi: 10.1159/000458151. Epub 2017 Apr 6.
6. Genetic variants in the major histocompatibility complex class I and class II genes are associated with diisocyanate-induced Asthma. Yucesoy B, etal., J Occup Environ Med. 2014 Apr;56(4):382-7. doi: 10.1097/JOM.0000000000000138.
Additional References at PubMed
PMID:3865896   PMID:19740318   PMID:20356827   PMID:25672758  


Genomics

Markers in Region
D20Rhw1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.220157,756 - 157,908 (+)MAPPERmRatBN7.2
Rnor_6.020303,758 - 303,909NCBIRnor6.0
Rnor_5.020297,840 - 297,991UniSTSRnor5.0
RGSC_v3.42074,938 - 75,089UniSTSRGSC3.4
Celera201,029,929 - 1,030,080UniSTS
Cytogenetic Map20p12UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
GenBank Nucleotide AH003181 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Protein Sequences
GenBank Protein AAA74477 (Get FASTA)   NCBI Sequence Viewer  
  P06341 (Get FASTA)   NCBI Sequence Viewer  
Protein Domains
Ig-like C1-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P06341-F1-model_v2 AlphaFold P06341 1-233 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3467 AgrOrtholog
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
  Class II Histocompatibility Antigen, M Beta Chain, Chain B, domain 1 UniProtKB/Swiss-Prot
InterPro Ig-like_dom UniProtKB/Swiss-Prot
  Ig-like_dom_sf UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  Ig/MHC_CS UniProtKB/Swiss-Prot
  Ig_C1-set UniProtKB/Swiss-Prot
  MHC/Immunoglobulin UniProtKB/Swiss-Prot
  MHC_I/II-like_Ag-recog UniProtKB/Swiss-Prot
  MHC_II_a/b_N UniProtKB/Swiss-Prot
  MHC_II_b_N UniProtKB/Swiss-Prot
NCBI Gene 24738 ENTREZGENE
PANTHER HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DQ BETA 1 CHAIN UniProtKB/Swiss-Prot
  MHC CLASS II-RELATED UniProtKB/Swiss-Prot
Pfam C1-set UniProtKB/Swiss-Prot
  MHC_II_beta UniProtKB/Swiss-Prot
PhenoGen RT1-B PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot
  IG_MHC UniProtKB/Swiss-Prot
SMART IGc1 UniProtKB/Swiss-Prot
  MHC_II_beta UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot
  SSF54452 UniProtKB/Swiss-Prot
UniProt HB2A_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-09-15 RT1-B  RT1 class II, locus B  RT1-B  RT1 region, class II (B)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 RT1-2.5  RT1 region, class II (B)  RT1-B  RT1 region, class II, locus B  Name updated 625702 APPROVED
2002-06-10 RT1-B  RT1 region, class II, locus B      Symbol and Name status set to approved 70586 APPROVED