RT1-T18 (RT1 class Ib, locus T18) - Rat Genome Database

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Gene: RT1-T18 (RT1 class Ib, locus T18) Rattus norvegicus
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Symbol: RT1-T18 (Ensembl: AABR07044361.1)
Name: RT1 class Ib, locus T18
RGD ID: 1303092
Description: INVOLVED IN antigen processing and presentation of peptide antigen via MHC class I (inferred); immune system process (inferred); PARTICIPATES IN allograft rejection pathway; antigen processing and presentation pathway; autoimmune thyroiditis pathway; FOUND IN lumenal side of endoplasmic reticulum membrane (inferred); membrane (inferred); MHC class I protein complex (inferred); INTERACTS WITH 2,2',5,5'-tetrachlorobiphenyl; 2,6-dinitrotoluene; 6-propyl-2-thiouracil
Type: protein-coding (Ensembl: pseudogene)
RefSeq Status: VALIDATED
Previously known as: H-2 class I histocompatibility antigen, TLA(B) alpha chain-like; H2-T18; H2-T3; histocompatibility 2, T region locus 18; histocompatibility 2, T region locus 3; LOC108348140; MHC class Ib antigen; RanoTL; TL antigen; Tla
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8202,605,478 - 2,614,543 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.2202,605,261 - 2,608,909 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl202,605,265 - 2,608,909 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx202,699,563 - 2,703,220 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0202,704,522 - 2,708,183 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0202,641,679 - 2,645,340 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0203,113,026 - 3,114,031 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,115,840 - 3,123,100 (+)Ensemblrn6Rnor6.0
Rnor_5.0205,217,007 - 5,231,707 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4202,754,269 - 2,758,358 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2056,895 - 60,365 (+)NCBICelera
RGSC_v3.1202,754,495 - 2,758,585 (+)NCBI
Cytogenetic Map20p12NCBI
JBrowse:




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

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Hyperconservation of the putative antigen recognition site of the MHC class I-b molecule TL in the subfamily Murinae: evidence that thymus leukemia antigen is an ancient mammalian gene. Davis BK, etal., J Immunol 2002 Dec 15;169(12):6890-9.
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15060004  


Genomics

Variants

.
Variants in RT1-T18
165 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:284
Count of miRNA genes:189
Interacting mature miRNAs:206
Transcripts:ENSRNOT00000061395
Prediction methods:Microtar, 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


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
sensory system
visual system
7 2 10 37 52 39 10 6 2 9 9

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001002821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063279362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063279363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063279364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063279365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010060733 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010060734 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010060735 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010060736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010060737 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010060738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010060739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AH012206 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH012207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY144125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC104719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX883049 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000061395
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,118,709 - 3,123,100 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000080406
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,118,837 - 3,122,637 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000084324
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,115,840 - 3,116,058 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000088029
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl202,605,265 - 2,608,909 (+)Ensembl
RefSeq Acc Id: NM_001002821   ⟹   NP_001002821
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,610,278 - 2,613,925 (+)NCBI
mRatBN7.2202,605,261 - 2,608,909 (+)NCBI
Rnor_6.0203,113,026 - 3,114,031 (+)NCBI
Rnor_5.0205,217,007 - 5,231,707 (+)NCBI
RGSC_v3.4202,754,269 - 2,758,358 (+)RGD
Celera2056,895 - 60,365 (+)RGD
Sequence:
RefSeq Acc Id: XM_063279362   ⟹   XP_063135432
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,771 - 2,614,543 (+)NCBI
RefSeq Acc Id: XM_063279363   ⟹   XP_063135433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,791 - 2,614,543 (+)NCBI
RefSeq Acc Id: XM_063279364   ⟹   XP_063135434
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,879 - 2,614,543 (+)NCBI
RefSeq Acc Id: XM_063279365   ⟹   XP_063135435
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,792 - 2,614,543 (+)NCBI
RefSeq Acc Id: XR_010060733
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,771 - 2,614,543 (+)NCBI
RefSeq Acc Id: XR_010060734
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,810 - 2,614,543 (+)NCBI
RefSeq Acc Id: XR_010060735
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,791 - 2,614,543 (+)NCBI
RefSeq Acc Id: XR_010060736
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,791 - 2,614,543 (+)NCBI
RefSeq Acc Id: XR_010060737
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,605,478 - 2,614,543 (+)NCBI
RefSeq Acc Id: XR_010060738
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,519 - 2,614,543 (+)NCBI
RefSeq Acc Id: XR_010060739
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8202,606,879 - 2,614,543 (+)NCBI
RefSeq Acc Id: NP_001002821   ⟸   NM_001002821
- Peptide Label: precursor
- UniProtKB: Q6MFZ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_063135432   ⟸   XM_063279362
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063135433   ⟸   XM_063279363
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063135435   ⟸   XM_063279365
- Peptide Label: isoform X2
- UniProtKB: Q6MFZ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063135434   ⟸   XM_063279364
- Peptide Label: isoform X1
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:1303092 AgrOrtholog
BioCyc Gene G2FUF-4829 BioCyc
Ensembl Genes ENSRNOG00000030666 Ensembl
  ENSRNOG00000062067 Ensembl
  ENSRNOG00000071227 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000120362 ENTREZGENE
  ENSRNOT00000120362.2 UniProtKB/TrEMBL
  ENSRNOT00000147531 ENTREZGENE
  ENSRNOT00000147531.1 UniProtKB/TrEMBL
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
KEGG Report rno:406194 UniProtKB/TrEMBL
NCBI Gene 406194 ENTREZGENE
PANTHER H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, TLA(B) ALPHA CHAIN-RELATED UniProtKB/TrEMBL
  MHC CLASS I-RELATED UniProtKB/TrEMBL
Pfam C1-set UniProtKB/TrEMBL
  MHC_I UniProtKB/TrEMBL
PhenoGen RT1-T18 PhenoGen
PRINTS MHCCLASSI UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
  IG_MHC UniProtKB/TrEMBL
RatGTEx ENSRNOG00000030666 RatGTEx
  ENSRNOG00000062067 RatGTEx
  ENSRNOG00000071227 RatGTEx
SMART IGc1 UniProtKB/TrEMBL
Superfamily-SCOP MHC_I/II-like_Ag-recog UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0ABK0LXK2_RAT UniProtKB/TrEMBL
  Q6MFZ7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 RT1-T18  RT1 class Ib, locus T18  LOC108348140  H-2 class I histocompatibility antigen, TLA(B) alpha chain-like  Data merged from RGD:11396749 737654 PROVISIONAL
2016-08-02 LOC108348140  H-2 class I histocompatibility antigen, TLA(B) alpha chain-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2009-09-11 RT1-T18  RT1 class Ib, locus T18  H2-T3  histocompatibility 2, T region locus 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-05-20 H2-T3  histocompatibility 2, T region locus 3  H2-T18  histocompatibility 2, T region locus 18  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED