RT1-CE15 (RT1 class I, locus CE15) - Rat Genome Database

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Gene: RT1-CE15 (RT1 class I, locus CE15) Rattus norvegicus
Analyze
No known orthologs.
Symbol: RT1-CE15
Name: RT1 class I, locus CE15
RGD ID: 1359630
Description: Predicted to enable aspartic-type endopeptidase activity. Predicted to be involved in proteolysis; PARTICIPATES IN allograft rejection pathway; antigen processing and presentation pathway; autoimmune thyroiditis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: class I histocompatibility antigen, Non-RT1.A alpha-1 chain; LOC100364500; RT1 class I histocompatibility antigen, AA alpha chain; RT1 class I, CE15; RT1 class I, CE15 mature; RT1 class I, locus CE11-like
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,269,135 - 3,283,819 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.2203,275,575 - 3,279,074 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,276,012 - 3,279,563 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl203,264,172 - 3,279,563 (-)EnsemblmRatBN7.2
Rnor_6.0202,704,153 - 2,707,111 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl202,704,148 - 2,707,120 (-)NCBIrn6Rnor6.0
Rnor_6.0 Ensembl202,704,148 - 2,707,120 (-)Ensemblrn6Rnor6.0
Rnor_5.0204,805,696 - 4,808,428 (-)NCBIRnor_5.0Rnor_5.0rn5
Cytogenetic Map20p12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Association between human leukocyte antigen polymorphism and human papillomavirus 16-positive vulval intraepithelial neoplasia in British women. Davidson EJ, etal., Cancer Res. 2003 Jan 15;63(2):400-3.
2. HLA profile in patients with AIDS and tuberculosis. Figueiredo JF, etal., Braz J Infect Dis. 2008 Aug;12(4):278-80. doi: 10.1590/s1413-86702008000400004.
3. 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.
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:2731966   PMID:3839199   PMID:12082013   PMID:29531166  


Genomics

Variants

.
Variants in RT1-CE15
1233 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:33
Count of miRNA genes:33
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000048535
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015332005306452Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2016693431Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20126925056Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126128279Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20153308346533083Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124164241Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129193376Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)2016693431Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20127341128Rat
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2013629303Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129193376Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129193376Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129193376Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129193376Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20114100378Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578510Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat

Markers in Region
D20Mgh3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,417,756 - 3,417,890 (+)MAPPERmRatBN7.2
mRatBN7.2203,516,801 - 3,516,931 (+)MAPPERmRatBN7.2
Rnor_6.0204,931,692 - 4,931,821NCBIRnor6.0
Rnor_6.0204,638,390 - 4,638,523NCBIRnor6.0
Rnor_5.0206,718,432 - 6,718,565UniSTSRnor5.0
Rnor_5.0207,007,836 - 7,007,965UniSTSRnor5.0
RGSC_v3.4203,551,934 - 3,552,063UniSTSRGSC3.4
RGSC_v3.4203,430,123 - 3,430,256UniSTSRGSC3.4
Celera203,419,083 - 3,419,216UniSTS
RH 3.4 Map2052.52RGD
RH 2.0 Map2045.1RGD
Cytogenetic Map20p12UniSTS
D20Wox4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,417,761 - 3,417,890 (+)MAPPERmRatBN7.2
mRatBN7.2203,516,806 - 3,516,931 (+)MAPPERmRatBN7.2
Rnor_6.0204,931,697 - 4,931,821NCBIRnor6.0
Rnor_6.0204,638,395 - 4,638,523NCBIRnor6.0
Rnor_5.0207,007,841 - 7,007,965UniSTSRnor5.0
Rnor_5.0206,718,437 - 6,718,565UniSTSRnor5.0
RGSC_v3.4203,551,939 - 3,552,063UniSTSRGSC3.4
RGSC_v3.4203,430,123 - 3,430,251UniSTSRGSC3.4
Celera205,293,636 - 5,293,725UniSTS
Celera203,419,088 - 3,419,216UniSTS
RGSC_v3.1203,430,349 - 3,430,478RGD
RH 3.4 Map2051.4UniSTS
RH 3.4 Map2051.4RGD
RH 2.0 Map2039.4RGD
Cytogenetic Map20p12UniSTS
D20Wox23  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0206,994,638 - 6,994,850NCBIRnor5.0
Rnor_5.0206,969,406 - 6,969,629NCBIRnor5.0
RGSC_v3.4203,510,154 - 3,510,376UniSTSRGSC3.4
RGSC_v3.4203,536,556 - 3,536,767UniSTSRGSC3.4
Cytogenetic Map20p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
7 1 18 48 67 138 95 10 47 36 32 14 14

Sequence


Ensembl Acc Id: ENSRNOT00000048535   ⟹   ENSRNOP00000051211
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl202,704,376 - 2,707,120 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000048858
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,276,012 - 3,279,563 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000082052   ⟹   ENSRNOP00000071062
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl202,704,148 - 2,707,108 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000084461   ⟹   ENSRNOP00000069895
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,264,172 - 3,279,563 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098591   ⟹   ENSRNOP00000077860
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,268,582 - 3,279,563 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000109199   ⟹   ENSRNOP00000094534
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,268,648 - 3,279,069 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110963   ⟹   ENSRNOP00000087161
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,268,813 - 3,279,389 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112433   ⟹   ENSRNOP00000093129
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,268,604 - 3,279,096 (-)Ensembl
RefSeq Acc Id: NM_001008838   ⟹   NP_001008838
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,280,271 - 3,283,770 (-)NCBI
mRatBN7.2203,275,575 - 3,279,074 (-)NCBI
Rnor_5.0204,805,696 - 4,808,428 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063279404   ⟹   XP_063135474
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,280,056 - 3,283,770 (-)NCBI
RefSeq Acc Id: XR_010060747
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8203,269,135 - 3,283,819 (-)NCBI
RefSeq Acc Id: NP_001008838   ⟸   NM_001008838
- Peptide Label: precursor
- UniProtKB: Q6MG29 (UniProtKB/TrEMBL),   A0A2P1NRY8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000051211   ⟸   ENSRNOT00000048535
Ensembl Acc Id: ENSRNOP00000071062   ⟸   ENSRNOT00000082052
Ensembl Acc Id: ENSRNOP00000069895   ⟸   ENSRNOT00000084461
Ensembl Acc Id: ENSRNOP00000093129   ⟸   ENSRNOT00000112433
Ensembl Acc Id: ENSRNOP00000077860   ⟸   ENSRNOT00000098591
Ensembl Acc Id: ENSRNOP00000087161   ⟸   ENSRNOT00000110963
Ensembl Acc Id: ENSRNOP00000094534   ⟸   ENSRNOT00000109199
RefSeq Acc Id: XP_063135474   ⟸   XM_063279404
- Peptide Label: isoform X1
- UniProtKB: A0A2P1NRY8 (UniProtKB/TrEMBL)
Protein Domains
Ig-like

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:1359630 AgrOrtholog
BioCyc Gene G2FUF-4719 BioCyc
Ensembl Genes ENSRNOG00000048951 Ensembl
  ENSRNOG00000065311 Ensembl
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.30.500.10 UniProtKB/TrEMBL
InterPro Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/TrEMBL
  Ig_C1-set UniProtKB/TrEMBL
  MHC_class-I_related UniProtKB/TrEMBL
  MHC_I-like_Ag-recog UniProtKB/TrEMBL
  MHC_I-like_Ag-recog_sf UniProtKB/TrEMBL
  MHC_I/II-like_Ag-recog UniProtKB/TrEMBL
  MHC_I_a_a1/a2 UniProtKB/TrEMBL
  MHC_I_a_C UniProtKB/TrEMBL
KEGG Report rno:414789 UniProtKB/TrEMBL
NCBI Gene 414789 ENTREZGENE
PANTHER HLA CLASS I HISTOCOMPATIBILITY ANTIGEN, C ALPHA CHAIN UniProtKB/TrEMBL
  MHC CLASS I-RELATED UniProtKB/TrEMBL
Pfam C1-set UniProtKB/TrEMBL
  MHC_I UniProtKB/TrEMBL
  MHC_I_C UniProtKB/TrEMBL
PhenoGen RT1-CE15 PhenoGen
PRINTS MHCCLASSI UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
  IG_MHC UniProtKB/TrEMBL
RatGTEx ENSRNOG00000048951 RatGTEx
  ENSRNOG00000065311 RatGTEx
SMART IGc1 UniProtKB/TrEMBL
Superfamily-SCOP MHC_I/II-like_Ag-recog UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A2P1NRY8 ENTREZGENE, UniProtKB/TrEMBL
  Q6MG29 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 RT1-CE15  RT1 class I, locus CE15  LOC100364500  RT1 class I, locus CE11-like  Data merged from RGD:2320860 737654 PROVISIONAL
2010-05-05 LOC100364500  RT1 class I, locus CE11-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2009-09-15 RT1-CE15  RT1 class I, locus CE15  RT1-CE15  RT1 class I, CE15  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RT1-CE15  RT1 class I, CE15      Symbol and Name updated 1559027 APPROVED
2005-07-29 RT1-CE15  RT1 class I, CE15      Symbol and Name status set to provisional 70820 PROVISIONAL