RT1-DMb (RT1 class II, locus DMb) - Rat Genome Database

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Gene: RT1-DMb (RT1 class II, locus DMb) Rattus norvegicus
Analyze
Symbol: RT1-DMb
Name: RT1 class II, locus DMb
RGD ID: 735096
Description: Predicted to enable MHC class II protein complex binding activity. Predicted to be involved in peptide antigen assembly with MHC class II protein complex; positive regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell; and positive regulation of T cell proliferation. Predicted to act upstream of or within antigen processing and presentation of exogenous peptide antigen via MHC class II and chaperone cofactor-dependent protein refolding. Predicted to be located in late endosome membrane; lysosomal membrane; and multivesicular body. Predicted to be part of MHC class II protein complex. Orthologous to human HLA-DMB (major histocompatibility complex, class II, DM beta); PARTICIPATES IN allograft rejection pathway; antigen processing and presentation pathway; asthma pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 3,3',5,5'-tetrabromobisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: class II histocompatibility antigen, M beta 1 chain; DMb; Hla-dmb; LOC108348139; major histocompatibility complex, class II, DM beta; MHC class II-like beta chain; RT1 class II, DM beta; RT1.DMb; RT1.Mb
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   DA.AS2-(Tesb-RT1-DMb)   DA.KHW-(RT1-Db1-RT1-DMb)   DA.E3-(Btnl2-RT1-DMb)  
QTLs:   Tcs2  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2204,693,102 - 4,700,340 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl204,693,103 - 4,700,340 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx205,445,432 - 5,452,711 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0204,807,175 - 4,814,454 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0205,288,598 - 5,295,865 (-)NCBIRnor_WKY
Rnor_6.0203,945,383 - 3,952,838 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,945,601 - 3,952,846 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,227,045 - 5,234,290 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,288,114 - 7,295,355 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,829,535 - 4,836,772 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1204,829,762 - 4,836,902 (-)NCBI
Celera206,293,763 - 6,301,000 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3-methylcholanthrene  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4-hydroxyphenyl retinamide  (ISO)
acrylamide  (ISO)
albendazole  (ISO)
ampicillin  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
belinostat  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[ghi]perylene  (ISO)
Benzo[k]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
bortezomib  (ISO)
buspirone  (EXP)
cadmium dichloride  (EXP)
calcitriol  (ISO)
carbon nanotube  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
dexamethasone  (ISO)
dichloromethane  (EXP)
diethyl malate  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
epoxiconazole  (ISO)
ethosuximide  (ISO)
ethyl methanesulfonate  (ISO)
ethylbenzene  (EXP)
famotidine  (ISO)
fenthion  (ISO)
flutamide  (EXP)
formaldehyde  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
hexachlorobenzene  (EXP)
lead diacetate  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
levobunolol  (ISO)
lidocaine  (EXP)
mercury dibromide  (ISO)
methyl methanesulfonate  (ISO)
metronidazole  (EXP)
N,N-diethyl-m-toluamide  (EXP)
N-nitrosodiethylamine  (ISO)
N-nitrosodimethylamine  (EXP)
naproxen  (ISO)
neomycin  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
nitrofen  (EXP)
ozone  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
PCB138  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
permethrin  (EXP)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
piperacillin  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
protein kinase inhibitor  (ISO)
resveratrol  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium dichromate  (ISO)
Soman  (EXP)
streptozocin  (EXP)
tamibarotene  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topiramate  (ISO)
trichloroethene  (EXP)
Tungsten carbide  (ISO)
valdecoxib  (ISO)
valproic acid  (EXP,ISO)
vancomycin  (EXP,ISO)
vinclozolin  (EXP)
zoledronic acid  (ISO)

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. The major histocompatibility complex of the rat (Rattus norvegicus). Gunther E and Walter L, Immunogenetics 2001 Sep;53(7):520-42.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. HLA-DMA and HLA-DMB genotyping in patients with rheumatic diseases. Yen JH, etal., Kaohsiung J Med Sci. 1999 May;15(5):263-7.
Additional References at PubMed
PMID:7584146   PMID:7590989   PMID:7606781   PMID:8139689   PMID:11027433   PMID:11148202   PMID:11854359   PMID:12477932   PMID:19691639   PMID:22247549   PMID:22733780   PMID:24586191  


Genomics

Comparative Map Data
RT1-DMb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2204,693,102 - 4,700,340 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl204,693,103 - 4,700,340 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx205,445,432 - 5,452,711 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0204,807,175 - 4,814,454 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0205,288,598 - 5,295,865 (-)NCBIRnor_WKY
Rnor_6.0203,945,383 - 3,952,838 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,945,601 - 3,952,846 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,227,045 - 5,234,290 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,288,114 - 7,295,355 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,829,535 - 4,836,772 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1204,829,762 - 4,836,902 (-)NCBI
Celera206,293,763 - 6,301,000 (-)NCBICelera
Cytogenetic Map20p12NCBI
HLA-DMB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38632,934,636 - 32,941,028 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl632,934,629 - 32,941,028 (-)EnsemblGRCh38hg38GRCh38
GRCh37632,902,413 - 32,908,805 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36633,010,393 - 33,016,795 (-)NCBINCBI36Build 36hg18NCBI36
Build 34633,010,392 - 33,016,795NCBI
Celera634,451,309 - 34,457,750 (-)NCBICelera
Cytogenetic Map6p21.32NCBI
HuRef632,644,839 - 32,651,376 (-)NCBIHuRef
CHM1_1632,903,201 - 32,909,642 (-)NCBICHM1_1
T2T-CHM13v2.0632,755,985 - 32,762,378 (-)NCBIT2T-CHM13v2.0
H2-DMb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391734,372,165 - 34,379,203 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1734,372,046 - 34,379,204 (+)EnsemblGRCm39 Ensembl
GRCm381734,153,191 - 34,160,229 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1734,153,072 - 34,160,230 (+)EnsemblGRCm38mm10GRCm38
MGSCv371734,290,136 - 34,297,174 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361733,755,892 - 33,762,211 (+)NCBIMGSCv36mm8
Celera1735,203,417 - 35,204,017 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.98NCBI
LOC102023521
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554371,541,491 - 1,551,159 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554371,544,906 - 1,551,412 (-)NCBIChiLan1.0ChiLan1.0
MHC-DMB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1633,619,511 - 33,625,956 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl633,619,870 - 33,625,685 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0632,504,074 - 32,510,669 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
LOC101959667
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494638,108,261 - 38,113,614 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647625,846,630 - 25,851,409 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493647625,846,653 - 25,852,006 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLA-DMB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl725,119,139 - 25,128,236 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1725,119,278 - 25,125,089 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2729,485,890 - 29,491,702 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap7q1.1NCBI
MHC-DMB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11739,153,744 - 39,161,029 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1739,154,850 - 39,161,090 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604432,723,053 - 32,730,236 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101701356
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475423,773,934 - 23,779,952 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475423,774,013 - 23,779,851 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in RT1-DMb
169 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:393
Count of miRNA genes:143
Interacting mature miRNAs:165
Transcripts:ENSRNOT00000073474, ENSRNOT00000075342
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
7175099Tcs2T cell selection QTL 2T cell selectionexpression2045025574693102Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2046066076691706Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
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)20460660717617956Rat


Related Rat Strains
The following Strains have been annotated to RT1-DMb


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
Low 2 1 5 16 1 2 1 8
Below cutoff 2 15 33 23 6 23 3 5 8 19 17 5 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_198740 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601577 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC098547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC091108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX883043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM108008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226840 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222899 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222900 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC222901 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U31599 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Z49762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000073474   ⟹   ENSRNOP00000065741
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,693,600 - 4,698,489 (-)Ensembl
Rnor_6.0 Ensembl205,227,045 - 5,234,290 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000075342   ⟹   ENSRNOP00000066169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,693,103 - 4,700,340 (-)Ensembl
Rnor_6.0 Ensembl203,945,601 - 3,952,846 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078309
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,693,600 - 4,698,861 (-)Ensembl
Rnor_6.0 Ensembl205,227,161 - 5,230,034 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000079111
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,952,269 - 3,952,838 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000086240   ⟹   ENSRNOP00000074293
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,227,053 - 5,227,620 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087321
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,952,061 - 3,952,838 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000087520
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,227,053 - 5,227,830 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087782
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,230,949 - 5,231,561 (-)Ensembl
RefSeq Acc Id: NM_198740   ⟹   NP_942035
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,693,102 - 4,700,340 (-)NCBI
Rnor_6.0203,945,601 - 3,952,838 (+)NCBI
Rnor_5.0207,288,114 - 7,295,355 (-)NCBI
RGSC_v3.4204,829,535 - 4,836,772 (-)RGD
Celera206,293,763 - 6,301,000 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_942035   ⟸   NM_198740
- Peptide Label: precursor
- UniProtKB: Q6MGA7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074293   ⟸   ENSRNOT00000086240
RefSeq Acc Id: ENSRNOP00000066169   ⟸   ENSRNOT00000075342
RefSeq Acc Id: ENSRNOP00000065741   ⟸   ENSRNOT00000073474
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6MGA7-F1-model_v2 AlphaFold Q6MGA7 1-261 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701323
Promoter ID:EPDNEW_R11845
Type:initiation region
Name:LOC108348139_1
Description:class II histocompatibility antigen, M beta 1 chain
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0203,945,632 - 3,945,692EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:735096 AgrOrtholog
BioCyc Gene G2FUF-4551 BioCyc
Ensembl Genes ENSRNOG00000049491 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000051002 Ensembl
Ensembl Protein ENSRNOP00000065741.2 UniProtKB/TrEMBL
  ENSRNOP00000066169 ENTREZGENE
  ENSRNOP00000066169.1 UniProtKB/TrEMBL
  ENSRNOP00000097489.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073474.3 UniProtKB/TrEMBL
  ENSRNOT00000075342 ENTREZGENE
  ENSRNOT00000075342.3 UniProtKB/TrEMBL
  ENSRNOT00000078309.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.10.320.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7380292 IMAGE-MGC_LOAD
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_I/II-like_Ag-recog UniProtKB/TrEMBL
  MHC_II_a/b_N UniProtKB/TrEMBL
  MHC_II_b_N UniProtKB/TrEMBL
KEGG Report rno:294273 UniProtKB/TrEMBL
MGC_CLONE MGC:108534 IMAGE-MGC_LOAD
NCBI Gene 294273 ENTREZGENE
Pfam C1-set UniProtKB/TrEMBL
  MHC_II_beta UniProtKB/TrEMBL
PhenoGen RT1-DMb PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
  IG_MHC UniProtKB/TrEMBL
SMART IGc1 UniProtKB/TrEMBL
  MHC_II_beta UniProtKB/TrEMBL
Superfamily-SCOP MHC_I/II-like_Ag-recog UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A8I6ANG9_RAT UniProtKB/TrEMBL
  M0R8E5_RAT UniProtKB/TrEMBL
  Q6MGA7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 RT1-DMb  RT1 class II, locus DMb  LOC108348139  class II histocompatibility antigen, M beta 1 chain  Data Merged 737654 PROVISIONAL
2016-08-02 LOC108348139  class II histocompatibility antigen, M beta 1 chain      Symbol and Name status set to provisional 70820 PROVISIONAL
2009-09-14 RT1-DMb  RT1 class II, locus DMb  Hla-dmb  major histocompatibility complex, class II, DM beta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-09-14 Hla-dmb  major histocompatibility complex, class II, DM beta  RT1-DMb  RT1 class II, locus DMb  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-09-14 RT1-DMb   RT1 class II, locus DMb  Hla-dmb  major histocompatibility complex, class II, DM beta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Hla-dmb  major histocompatibility complex, class II, DM beta      Symbol and Name status set to approved 1299863 APPROVED
2005-09-30 Hla-dmb        Symbol and Name status set to provisional 70820 PROVISIONAL