U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

RT1-Bb RT1 class II, locus Bb [ Rattus norvegicus (Norway rat) ]

Gene ID: 309622, updated on 27-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
RT1-Bbprovided by RGD
Official Full Name
RT1 class II, locus Bbprovided by RGD
Primary source
RGD:3469
See related
EnsemblRapid:ENSRNOG00000032708 AllianceGenome:RGD:3469
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Bb; RT1.B
Summary
Predicted to enable several functions, including peptide antigen binding activity; protein antigen binding activity; and toxic substance binding activity. Involved in several processes, including cellular response to dexamethasone stimulus; cellular response to morphine; and negative regulation of T cell proliferation. Located in cell surface. Used to study uveitis. Biomarker of pneumocystosis. Human ortholog(s) of this gene implicated in several diseases, including allergic disease (multiple); autoimmune disease (multiple); bacterial infectious disease (multiple); hematologic cancer (multiple); and liver disease (multiple). Orthologous to several human genes including HLA-DQB1 (major histocompatibility complex, class II, DQ beta 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 1663.0), Thymus (RPKM 1183.1) and 8 other tissues See more
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See RT1-Bb in Genome Data Viewer
Location:
20p12
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (4598475..4604118, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (4596558..4602201, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (4043726..4049367)

Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene RT1 class II, locus Db1 Neighboring gene RT1 class II, locus Ba Neighboring gene RT1 class II, locus DOb Neighboring gene transporter 2, ATP binding cassette subfamily B member

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. HLA-DQB1*0501-restricted Th1 type immune responses to Plasmodium falciparum liver stage antigen 1 protect against malaria anemia and reinfections. May J, et al. J Infect Dis, 2001 Jan 1. PMID 11076705
  2. The major histocompatibility complex genes impact pain response in DA and DA.1U rats. Guo Y, et al. Physiol Behav, 2015 Aug 1. PMID 25861730
  3. Association between HLA-DQB1 alleles and HAM/TSP patients in Khorasan Province. Tafreshian AR, et al. Iran J Basic Med Sci, 2014 Oct. PMID 25729550, Free PMC Article
  4. Significantly increased occurrence of HLA-DQB1*0301 allele in patients with ocular cicatricial pemphigoid. Chan LS, et al. J Invest Dermatol, 1997 Feb. PMID 9008223
  5. Human leukocyte antigen class II associations in patients with idiopathic dilated cardiomyopathy. Myocarditis Treatment Trial Investigators. Lozano MD, et al. J Card Fail, 1997 Jun. PMID 9220309

See all (232) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The results of this study indicated that MHC genes might contribute to the difference in pain sensitivity
    Title: The major histocompatibility complex genes impact pain response in DA and DA.1U rats.
  2. MHC class II is considered to be involved in the initiation of PS-induced hepatic fibrosis in rats.
    Title: MHC class II-related genes expression in porcine-serum-induced rat hepatic fibrosis.
Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

Homology

Clone Names

  • MGC94124

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables MHC class II protein complex binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables peptide antigen binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables peptide antigen binding ISO
Inferred from Sequence Orthology
more info
  
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in T cell receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in adaptive immune response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within antigen processing and presentation ISO
Inferred from Sequence Orthology
more info
  
involved_in antigen processing and presentation of exogenous peptide antigen via MHC class II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within antigen processing and presentation of exogenous peptide antigen via MHC class II ISO
Inferred from Sequence Orthology
more info
  
involved_in antigen processing and presentation of exogenous peptide antigen via MHC class II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within antigen processing and presentation of peptide antigen ISO
Inferred from Sequence Orthology
more info
  
involved_in antigen processing and presentation of peptide or polysaccharide antigen via MHC class II IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to dexamethasone stimulus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in cellular response to glucocorticoid stimulus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in cellular response to morphine IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in defense response to fungus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in humoral immune response ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within immune response ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of T cell proliferation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in peptide antigen assembly with MHC class II protein complex IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of T cell activation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
  
part_of MHC class II protein complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of MHC class II protein complex IEA
Inferred from Electronic Annotation
more info
  
part_of MHC class II protein complex ISO
Inferred from Sequence Orthology
more info
  
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell surface IEA
Inferred from Electronic Annotation
more info
  
located_in early endosome ISO
Inferred from Sequence Orthology
more info
  
located_in external side of plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in late endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane ISO
Inferred from Sequence Orthology
more info
  
located_in multivesicular body ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
rano class II histocompatibility antigen, B-1 beta chain
Names
MHC class II antigen B beta chain
RT1 class II histocompatibility antigen, B-1 beta chain
RT1.B-beta(1)
RT1.Bbeta 1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001004084.3 → NP_001004084.1  rano class II histocompatibility antigen, B-1 beta chain precursor

    See identical proteins and their annotated locations for NP_001004084.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000020
    UniProtKB/Swiss-Prot
    P29826
    UniProtKB/TrEMBL
    A0A023ILS1, A6JJD7, Q5UT93, Q5UT99, Q6AYB1
    Related
    ENSRNOP00000000525.6, ENSRNOT00000000525.9
    Conserved Domains (2) summary
    cd05766
    Location:123 → 216
    IgC_MHC_II_beta; Class II major histocompatibility complex (MHC) beta chain immunoglobulin domain
    pfam00969
    Location:40 → 112
    MHC_II_beta; Class II histocompatibility antigen, beta domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086038.1 Reference GRCr8

    Range
    4598475..4604118 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P29826.1 GenPept UniProtKB/Swiss-Prot:P29826

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools