U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

RT1-N3 RT1 class Ib, locus N3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 24750, updated on 2-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
RT1-N3provided by RGD
Official Full Name
RT1 class Ib, locus N3provided by RGD
Primary source
RGD:1598370
See related
EnsemblRapid:ENSRNOG00000000795 AllianceGenome:RGD:1598370
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
Summary
Predicted to enable peptide antigen binding activity and signaling receptor binding activity. Predicted to be involved in several processes, including antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent; antigen processing and presentation of endogenous peptide antigen via MHC class Ib; and positive regulation of T cell mediated cytotoxicity. Predicted to be active in external side of plasma membrane and extracellular space. Human ortholog(s) of this gene implicated in several diseases, including Stevens-Johnson syndrome; asthma (multiple); autoimmune disease (multiple); eye disease (multiple); and inner ear disease (multiple). Orthologous to human HLA-B (major histocompatibility complex, class I, B); HLA-C (major histocompatibility complex, class I, C); and HLA-E (major histocompatibility complex, class I, E). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 380.4), Spleen (RPKM 114.9) 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-N3 in Genome Data Viewer
Location:
20p12
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (2666469..2670355)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (2659132..2665536)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (3166793..3170945)

Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene RT1 class Ib, locus O1 like 1 Neighboring gene uncharacterized LOC134483846 Neighboring gene RT1 class Ib, locus S2 Neighboring gene ribosomal protein S2, pseudogene 1 Neighboring gene RT1 class Ib, locus O1 Neighboring gene RT1 class Ib, locus S3 Neighboring gene RT1 class I, locus T24, gene 4 Neighboring gene class I gene fragment 2361

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 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. Multiple TL-like loci in the grc-G/C region of the rat. Kirisits MJ, et al. Immunogenetics, 1994. PMID 8168848
  2. Can a "fishbone" prevent peritonitis? Kurtin PS, et al. Nephrol News Issues, 1992 Nov. PMID 1300431
  3. The genomic sequence and comparative analysis of the rat major histocompatibility complex. Hurt P, et al. Genome Res, 2004 Apr. PMID 15060004, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables peptide antigen binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables signaling receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in antigen processing and presentation of endogenous peptide antigen via MHC class Ib IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of T cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
RT1 class Ib, locus N3
Names
RT1 class Ib gene, H2-TL-like, grc region (N3)

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_001008855.2 → NP_001008855.1  RT1 class Ib, locus N3

    See identical proteins and their annotated locations for NP_001008855.1

    Status: VALIDATED

    Source sequence(s)
    BC158567, FM122995
    UniProtKB/TrEMBL
    A0A023GRW5, F6PT03, G5EBE1, H7C829, I1SB24, L7N646, Q31280, Q6MG01, U3KRG4, V9HVV1
    Related
    ENSRNOP00000001035.5, ENSRNOT00000001035.7
    Conserved Domains (2) summary
    cd07698
    Location:207 → 299
    IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    cl08246
    Location:33 → 203
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

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
    2666469..2670355
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039098420.2 → XP_038954348.1  RT1 class Ib, locus N3 isoform X2

    UniProtKB/TrEMBL
    F6PT03
    Conserved Domains (3) summary
    cd00096
    Location:208 → 216
    Ig; Ig strand A [structural motif]
    cl08246
    Location:33 → 203
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
    cl11960
    Location:204 → 299
    Ig; Immunoglobulin domain

  2. XM_006255908.5 → XP_006255970.1  RT1 class Ib, locus N3 isoform X1

    UniProtKB/TrEMBL
    F6PT03
    Conserved Domains (2) summary
    cd07698
    Location:207 → 299
    IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    cl08246
    Location:33 → 203
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

  3. XM_006255909.5 → XP_006255971.1  RT1 class Ib, locus N3 isoform X4

    UniProtKB/TrEMBL
    F6PT03
    Conserved Domains (2) summary
    cd07698
    Location:207 → 299
    IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    cl08246
    Location:33 → 203
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

  4. XM_039098421.2 → XP_038954349.1  RT1 class Ib, locus N3 isoform X3

    UniProtKB/TrEMBL
    F6PT03
    Related
    ENSRNOP00000074505.3, ENSRNOT00000084770.4
    Conserved Domains (3) summary
    cd00096
    Location:208 → 216
    Ig; Ig strand A [structural motif]
    cl08246
    Location:33 → 203
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
    cl11960
    Location:204 → 299
    Ig; Immunoglobulin domain
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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

Molecular Biology Databases
Research Materials
Tools