LOC100909797 (RT1 class I histocompatibility antigen, AA alpha chain-like) - Rat Genome Database

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Pathways
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Gene: LOC100909797 (RT1 class I histocompatibility antigen, AA alpha chain-like) Rattus norvegicus
Analyze
Symbol: LOC100909797 (Ensembl: AABR07044364.1)
Name: RT1 class I histocompatibility antigen, AA alpha chain-like
RGD ID: 6501562
Description: Predicted to enable peptide antigen binding activity. Predicted to act upstream of or within several processes, including antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent; positive regulation of leukocyte mediated cytotoxicity; and response to bacterium. Predicted to be located in external side of plasma membrane. Predicted to be part of MHC class Ib protein complex.
Type: protein-coding
RefSeq Status: WITHDRAWN
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0203,242,236 - 3,253,995 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,242,470 - 3,249,189 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,340,515 - 5,348,199 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera20160,982 - 168,811 (+)NCBICelera
Cytogenetic Map20 NCBI


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
Additional References at PubMed
PMID:8464890   PMID:16299293   PMID:16461341   PMID:16476767  


Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:67
Count of miRNA genes:62
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000061299
Prediction methods: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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 2 3
Low 2 35 55 39 17 39 3 5 35 35 36 8 3
Below cutoff 8 2 2 2 5 6 39 5 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000061299   ⟹   ENSRNOP00000058011
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,246,739 - 3,249,188 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078110   ⟹   ENSRNOP00000075284
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,242,470 - 3,249,189 (+)Ensembl
RefSeq Acc Id: XM_008772768   ⟹   XP_008770990
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,242,236 - 3,253,995 (+)NCBI
Protein Sequences
Protein RefSeqs XP_008770990 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_008770990   ⟸   XM_008772768
RefSeq Acc Id: ENSRNOP00000058011   ⟸   ENSRNOT00000061299
RefSeq Acc Id: ENSRNOP00000075284   ⟸   ENSRNOT00000078110

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LXB3-F1-model_v2 AlphaFold F1LXB3 1-281 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:6501562 AgrOrtholog
Ensembl Genes ENSRNOG00000000787 Ensembl
NCBI Gene LOC100909797 ENTREZGENE
PhenoGen LOC100909797 PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-07-05 LOC100909797  RT1 class I histocompatibility antigen, AA alpha chain-like      Symbol and Name status set to provisional 70820 PROVISIONAL