RAET1G (retinoic acid early transcript 1G) - Rat Genome Database

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Gene: RAET1G (retinoic acid early transcript 1G) Homo sapiens
Analyze
Symbol: RAET1G
Name: retinoic acid early transcript 1G
RGD ID: 1343371
HGNC Page HGNC:16795
Description: Enables natural killer cell lectin-like receptor binding activity. Involved in natural killer cell mediated cytotoxicity and positive regulation of natural killer cell cytokine production. Located in intracellular membrane-bounded organelle and plasma membrane.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: retinoic acid early transcript 1G protein; retinoic acid early transcript 1G pseudogene; UL-16 binding protein 5; ULBP5
RGD Orthologs
Bonobo
Green Monkey
Alliance Genes
More Info more info ...
Related Pseudogenes: RAET1M  
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386149,916,878 - 149,923,121 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6149,916,878 - 149,923,121 (-)EnsemblGRCh38hg38GRCh38
GRCh376150,238,014 - 150,244,257 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366150,279,707 - 150,285,907 (-)NCBINCBI36Build 36hg18NCBI36
Build 346150,330,127 - 150,336,260NCBI
Celera6150,972,682 - 150,978,882 (-)NCBICelera
Cytogenetic Map6q25.1NCBI
HuRef6147,803,495 - 147,809,695 (-)NCBIHuRef
CHM1_16150,502,628 - 150,508,828 (-)NCBICHM1_1
T2T-CHM13v2.06151,116,222 - 151,122,465 (-)NCBIT2T-CHM13v2.0
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
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11827464   PMID:12477932   PMID:14702039   PMID:15240696   PMID:17878262   PMID:18544572   PMID:19223974   PMID:19424970   PMID:19658097   PMID:19688209   PMID:19861434   PMID:20219610  
PMID:20304922   PMID:20379614   PMID:20522206   PMID:21873635   PMID:23298206   PMID:25212604   PMID:25473094   PMID:25510288   PMID:26041808   PMID:26656785   PMID:37499664  


Genomics

Comparative Map Data
RAET1G
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386149,916,878 - 149,923,121 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6149,916,878 - 149,923,121 (-)EnsemblGRCh38hg38GRCh38
GRCh376150,238,014 - 150,244,257 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366150,279,707 - 150,285,907 (-)NCBINCBI36Build 36hg18NCBI36
Build 346150,330,127 - 150,336,260NCBI
Celera6150,972,682 - 150,978,882 (-)NCBICelera
Cytogenetic Map6q25.1NCBI
HuRef6147,803,495 - 147,809,695 (-)NCBIHuRef
CHM1_16150,502,628 - 150,508,828 (-)NCBICHM1_1
T2T-CHM13v2.06151,116,222 - 151,122,465 (-)NCBIT2T-CHM13v2.0
LOC100988536
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25169,925,972 - 169,932,232 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16167,819,573 - 167,825,717 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06147,719,511 - 147,725,765 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16152,424,796 - 152,431,160 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6152,424,827 - 152,430,940 (-)Ensemblpanpan1.1panPan2
LOC103240146
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11321,701,503 - 21,708,851 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023669088923 - 5,487 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in RAET1G
9 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 6q24.1-27(chr6:141132990-169339571)x3 copy number gain See cases [RCV000050604] Chr6:141132990..169339571 [GRCh38]
Chr6:141454127..169739666 [GRCh37]
Chr6:141495820..169481591 [NCBI36]
Chr6:6q24.1-27		 pathogenic
GRCh38/hg38 6q24.3-25.1(chr6:146481119-151427629)x1 copy number loss See cases [RCV000051005] Chr6:146481119..151427629 [GRCh38]
Chr6:146802255..151748764 [GRCh37]
Chr6:146843948..151790457 [NCBI36]
Chr6:6q24.3-25.1		 pathogenic
GRCh38/hg38 6q24.2-25.2(chr6:144932561-152985364)x1 copy number loss See cases [RCV000052206] Chr6:144932561..152985364 [GRCh38]
Chr6:145253697..153306499 [GRCh37]
Chr6:145295390..153348192 [NCBI36]
Chr6:6q24.2-25.2		 pathogenic
GRCh38/hg38 6q24.3-25.1(chr6:147805119-150893715)x1 copy number loss See cases [RCV000135408] Chr6:147805119..150893715 [GRCh38]
Chr6:148126255..151214851 [GRCh37]
Chr6:148167948..151256544 [NCBI36]
Chr6:6q24.3-25.1		 pathogenic
GRCh38/hg38 6q23.3-25.3(chr6:135358150-155455117)x3 copy number gain See cases [RCV000136826] Chr6:135358150..155455117 [GRCh38]
Chr6:135679288..155776251 [GRCh37]
Chr6:135720981..155817943 [NCBI36]
Chr6:6q23.3-25.3		 pathogenic
GRCh38/hg38 6q24.3-25.1(chr6:147580351-150227963)x3 copy number gain See cases [RCV000138362] Chr6:147580351..150227963 [GRCh38]
Chr6:147901487..150549099 [GRCh37]
Chr6:147943180..150590792 [NCBI36]
Chr6:6q24.3-25.1		 uncertain significance
GRCh38/hg38 6q23.2-27(chr6:133537271-165875545)x3 copy number gain See cases [RCV000143444] Chr6:133537271..165875545 [GRCh38]
Chr6:133858409..166289033 [GRCh37]
Chr6:133900102..166209023 [NCBI36]
Chr6:6q23.2-27		 pathogenic
GRCh37/hg19 6q24.2-25.1(chr6:144075695-152337005)x1 copy number loss See cases [RCV000448815] Chr6:144075695..152337005 [GRCh37]
Chr6:6q24.2-25.1		 pathogenic
GRCh37/hg19 6p25.3-q27(chr6:156975-170919482)x3 copy number gain See cases [RCV000512067] Chr6:156975..170919482 [GRCh37]
Chr6:6p25.3-q27		 pathogenic
GRCh37/hg19 6p25.3-q27(chr6:156975-170919482) copy number gain See cases [RCV000510595] Chr6:156975..170919482 [GRCh37]
Chr6:6p25.3-q27		 pathogenic
GRCh37/hg19 6q24.1-25.1(chr6:139513020-150389231)x1 copy number loss See cases [RCV000510942] Chr6:139513020..150389231 [GRCh37]
Chr6:6q24.1-25.1		 pathogenic
NM_001001788.4(RAET1G):c.403G>A (p.Gly135Ser) single nucleotide variant Inborn genetic diseases [RCV003284587] Chr6:149919271 [GRCh38]
Chr6:150240407 [GRCh37]
Chr6:6q25.1		 likely benign
GRCh37/hg19 6q24.2-25.1(chr6:144947731-150266155)x1 copy number loss not provided [RCV000682729] Chr6:144947731..150266155 [GRCh37]
Chr6:6q24.2-25.1		 pathogenic
GRCh37/hg19 6p25.3-q27(chr6:60107-171054786)x3 copy number gain not provided [RCV000745400] Chr6:60107..171054786 [GRCh37]
Chr6:6p25.3-q27		 pathogenic
GRCh37/hg19 6p25.3-q27(chr6:108666-170980171)x3 copy number gain not provided [RCV000745403] Chr6:108666..170980171 [GRCh37]
Chr6:6p25.3-q27		 pathogenic
GRCh37/hg19 6p25.3-q27(chr6:165632-170919470)x3 copy number gain not provided [RCV000745404] Chr6:165632..170919470 [GRCh37]
Chr6:6p25.3-q27		 pathogenic
GRCh37/hg19 6q25.1-25.2(chr6:149431322-154120064)x1 copy number loss not provided [RCV001005856] Chr6:149431322..154120064 [GRCh37]
Chr6:6q25.1-25.2		 pathogenic
GRCh37/hg19 6q24.3-25.1(chr6:148690764-150494873)x1 copy number loss See cases [RCV000790589] Chr6:148690764..150494873 [GRCh37]
Chr6:6q24.3-25.1		 pathogenic
GRCh37/hg19 6q24.3-25.3(chr6:148195086-160127254)x3 copy number gain not provided [RCV000846496] Chr6:148195086..160127254 [GRCh37]
Chr6:6q24.3-25.3		 pathogenic
NM_001001788.4(RAET1G):c.386A>G (p.Gln129Arg) single nucleotide variant Inborn genetic diseases [RCV002901311] Chr6:149919288 [GRCh38]
Chr6:150240424 [GRCh37]
Chr6:6q25.1		 uncertain significance
NM_001001788.4(RAET1G):c.535A>G (p.Thr179Ala) single nucleotide variant Inborn genetic diseases [RCV002685205] Chr6:149919139 [GRCh38]
Chr6:150240275 [GRCh37]
Chr6:6q25.1		 uncertain significance
NM_001001788.4(RAET1G):c.338A>G (p.Tyr113Cys) single nucleotide variant Inborn genetic diseases [RCV002757092] Chr6:149919564 [GRCh38]
Chr6:150240700 [GRCh37]
Chr6:6q25.1		 uncertain significance
NM_001001788.4(RAET1G):c.434G>A (p.Gly145Glu) single nucleotide variant Inborn genetic diseases [RCV002809036] Chr6:149919240 [GRCh38]
Chr6:150240376 [GRCh37]
Chr6:6q25.1		 uncertain significance
NM_001001788.4(RAET1G):c.710T>C (p.Met237Thr) single nucleotide variant Inborn genetic diseases [RCV002832655] Chr6:149918306 [GRCh38]
Chr6:150239442 [GRCh37]
Chr6:6q25.1		 uncertain significance
NM_001001788.4(RAET1G):c.532A>G (p.Met178Val) single nucleotide variant Inborn genetic diseases [RCV003179928] Chr6:149919142 [GRCh38]
Chr6:150240278 [GRCh37]
Chr6:6q25.1		 likely benign
NM_001001788.4(RAET1G):c.470T>C (p.Met157Thr) single nucleotide variant Inborn genetic diseases [RCV003191578] Chr6:149919204 [GRCh38]
Chr6:150240340 [GRCh37]
Chr6:6q25.1		 uncertain significance
NM_001001788.4(RAET1G):c.101G>C (p.Cys34Ser) single nucleotide variant Inborn genetic diseases [RCV003302235] Chr6:149919801 [GRCh38]
Chr6:150240937 [GRCh37]
Chr6:6q25.1		 uncertain significance
GRCh37/hg19 6q25.1(chr6:150127440-150330806)x3 copy number gain not provided [RCV003484653] Chr6:150127440..150330806 [GRCh37]
Chr6:6q25.1		 uncertain significance
GRCh37/hg19 6q22.31-25.3(chr6:119840686-156623091)x3 copy number gain not specified [RCV003986631] Chr6:119840686..156623091 [GRCh37]
Chr6:6q22.31-25.3		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:713
Count of miRNA genes:528
Interacting mature miRNAs:564
Transcripts:ENST00000367360, ENST00000367361, ENST00000479265
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 sensory system visual system adipose tissue appendage entire extraembryonic component
High
Medium 3 116 27 2 8 3 5 17 91 24 30 56 1
Low 987 970 1063 126 116 48 2520 494 1633 249 1053 1339 89 1 849 1450 2
Below cutoff 1401 1398 479 405 660 350 1678 1612 2049 148 303 228 54 293 1265

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001001788 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_130110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011535800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017010831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_047418729 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054355346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054355347 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_054355348 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK091263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK310157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL583835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY172579 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY172580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC096719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC098152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HY165961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JX162560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JX162561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JX162562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000367360   ⟹   ENSP00000356329
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6149,916,878 - 149,923,121 (-)Ensembl
RefSeq Acc Id: ENST00000367361   ⟹   ENSP00000356330
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6149,916,913 - 149,923,010 (-)Ensembl
RefSeq Acc Id: ENST00000479265   ⟹   ENSP00000417503
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl6149,918,707 - 149,923,121 (-)Ensembl
RefSeq Acc Id: NM_001001788   ⟹   NP_001001788
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh386149,916,878 - 149,923,121 (-)NCBI
GRCh376150,238,014 - 150,244,269 (-)NCBI
Build 366150,279,707 - 150,285,907 (-)NCBI Archive
Celera6150,972,682 - 150,978,882 (-)RGD
HuRef6147,803,495 - 147,809,695 (-)ENTREZGENE
CHM1_16150,502,628 - 150,508,902 (-)NCBI
T2T-CHM13v2.06151,116,222 - 151,122,465 (-)NCBI
Sequence:
RefSeq Acc Id: NR_130110
RefSeq Status: REVIEWED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh386149,916,878 - 149,923,121 (-)NCBI
CHM1_16150,502,628 - 150,508,902 (-)NCBI
T2T-CHM13v2.06151,116,222 - 151,122,465 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011535800   ⟹   XP_011534102
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh386149,916,878 - 149,923,121 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017010831   ⟹   XP_016866320
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh386149,916,878 - 149,923,121 (-)NCBI
Sequence:
RefSeq Acc Id: XM_047418729   ⟹   XP_047274685
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh386149,918,173 - 149,923,121 (-)NCBI
RefSeq Acc Id: XM_054355346   ⟹   XP_054211321
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.06151,116,326 - 151,122,465 (-)NCBI
RefSeq Acc Id: XM_054355347   ⟹   XP_054211322
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.06151,116,326 - 151,122,465 (-)NCBI
RefSeq Acc Id: XM_054355348   ⟹   XP_054211323
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.06151,117,517 - 151,122,465 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001001788   ⟸   NM_001001788
- Peptide Label: preproprotein
- UniProtKB: Q6H3X2 (UniProtKB/Swiss-Prot),   Q6H3X3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011534102   ⟸   XM_011535800
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_016866320   ⟸   XM_017010831
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSP00000417503   ⟸   ENST00000479265
RefSeq Acc Id: ENSP00000356330   ⟸   ENST00000367361
RefSeq Acc Id: ENSP00000356329   ⟸   ENST00000367360
RefSeq Acc Id: XP_047274685   ⟸   XM_047418729
- Peptide Label: isoform X3
RefSeq Acc Id: XP_054211322   ⟸   XM_054355347
- Peptide Label: isoform X2
RefSeq Acc Id: XP_054211321   ⟸   XM_054355346
- Peptide Label: isoform X1
RefSeq Acc Id: XP_054211323   ⟸   XM_054355348
- Peptide Label: isoform X3
Protein Domains
MHC class I-like antigen recognition-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6H3X3-F1-model_v2 AlphaFold Q6H3X3 1-334 view protein structure

Promoters
RGD ID:7209421
Promoter ID:EPDNEW_H10455
Type:initiation region
Name:RAET1G_1
Description:retinoic acid early transcript 1G
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh386149,923,121 - 149,923,181EPDNEW
RGD ID:6804133
Promoter ID:HG_KWN:55408
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell_12Hour,   HeLa_S3
Transcripts:ENST00000367361,   NM_001001788,   UC003QNM.2
Position:
Human AssemblyChrPosition (strand)Source
Build 366150,285,679 - 150,286,179 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:16795 AgrOrtholog
COSMIC RAET1G COSMIC
Ensembl Genes ENSG00000203722 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000367360 ENTREZGENE
  ENST00000367360.7 UniProtKB/Swiss-Prot
  ENST00000367361 ENTREZGENE
  ENST00000367361.6 UniProtKB/Swiss-Prot
  ENST00000479265.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.500.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000203722 GTEx
HGNC ID HGNC:16795 ENTREZGENE
Human Proteome Map RAET1G Human Proteome Map
InterPro MHC_I-like_Ag-recog UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MHC_I-like_Ag-recog_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MHC_I/II-like_Ag-recog UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:353091 UniProtKB/Swiss-Prot
NCBI Gene 353091 ENTREZGENE
OMIM 609244 OMIM
PANTHER MHC CLASS I-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UL-16 BINDING PROTEIN 5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam MHC_I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA134897742 PharmGKB
Superfamily-SCOP SSF54452 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt C9JAK3_HUMAN UniProtKB/TrEMBL
  J7HBB6_HUMAN UniProtKB/TrEMBL
  J7HEM2_HUMAN UniProtKB/TrEMBL
  J7HHG3_HUMAN UniProtKB/TrEMBL
  Q4V753_HUMAN UniProtKB/TrEMBL
  Q4V9S8_HUMAN UniProtKB/TrEMBL
  Q6H3X2 ENTREZGENE
  Q6H3X3 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q6H3X2 UniProtKB/Swiss-Prot