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RAET1E retinoic acid early transcript 1E [ Homo sapiens (human) ]

Gene ID: 135250, updated on 8-Oct-2017
Official Symbol
RAET1Eprovided by HGNC
Official Full Name
retinoic acid early transcript 1Eprovided by HGNC
Primary source
HGNC:HGNC:16793
See related
Ensembl:ENSG00000164520 MIM:609243; Vega:OTTHUMG00000015796
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RL-4; LETAL; ULBP4; N2DL-4; NKG2DL4; RAET1E2; bA350J20.7
Summary
This gene belong to the RAET1 family, which consists of major histocompatibility complex (MHC) class I-related genes located in a cluster on chromosome 6q24.2-q25.3. This and RAET1G protein differ from other RAET1 proteins in that they have type I membrane-spanning sequences at their C termini rather than glycosylphosphatidylinositol anchor sequences. This protein functions as a ligand for NKG2D receptor, which is expressed on the surface of several types of immune cells, and is involved in innate and adaptive immune responses. Alternatively spliced transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Aug 2011]
Orthologs
Location:
6q25.1
Exon count:
10
Annotation release Status Assembly Chr Location
108 current GRCh38.p7 (GCF_000001405.33) 6 NC_000006.12 (149864399..149898353, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (150204511..150217195, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene protein-L-isoaspartate (D-aspartate) O-methyltransferase Neighboring gene uncharacterized LOC107986660 Neighboring gene LDL receptor related protein 11 Neighboring gene RAET1E antisense RNA 1 Neighboring gene multimerin-2-like Neighboring gene chaperonin containing TCP1 subunit 7 pseudogene 1 Neighboring gene multimerin 2 pseudogene Neighboring gene retinoic acid early transcript 1F pseudogene

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

  • Adaptive Immune System, organism-specific biosystem (from REACTOME)
    Adaptive Immune System, organism-specific biosystemAdaptive immunity refers to antigen-specific immune response efficiently involved in clearing the pathogens. The adaptive immune system is comprised of B and T lymphocytes that express receptors with...
  • Immune System, organism-specific biosystem (from REACTOME)
    Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
  • Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell, organism-specific biosystem (from REACTOME)
    Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell, organism-specific biosystemA number of receptors and cell adhesion molecules play a key role in modifying the response of cells of lymphoid origin (such as B-, T- and NK cells) to self and tumor antigens, as well as to pathoge...
  • Natural killer cell mediated cytotoxicity, organism-specific biosystem (from KEGG)
    Natural killer cell mediated cytotoxicity, organism-specific biosystemNatural killer (NK) cells are lymphocytes of the innate immune system that are involved in early defenses against both allogeneic (nonself) cells and autologous cells undergoing various forms of stre...
  • Natural killer cell mediated cytotoxicity, conserved biosystem (from KEGG)
    Natural killer cell mediated cytotoxicity, conserved biosystemNatural killer (NK) cells are lymphocytes of the innate immune system that are involved in early defenses against both allogeneic (nonself) cells and autologous cells undergoing various forms of stre...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • MGC125308, MGC125309

Gene Ontology Provided by GOA

Function Evidence Code Pubs
natural killer cell lectin-like receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
T cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
 
natural killer cell mediated cytotoxicity IDA
Inferred from Direct Assay
more info
PubMed 
regulation of immune response TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
extracellular region IEA
Inferred from Electronic Annotation
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
plasma membrane NAS
Non-traceable Author Statement
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
Preferred Names
NKG2D ligand 4
Names
RAE-1-like transcript 4
lymphocyte effector toxicity activation ligand

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_029833.1 RefSeqGene

    Range
    5001..17685
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001243325.1NP_001230254.1  NKG2D ligand 4 isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses alternate in-frame donor and acceptor splice sites at adjacent coding exons compared to variant 1. This results in a shorter isoform (2) missing an internal protein segment compared to isoform 1.
    Source sequence(s)
    AY054974, AY069961, AY359075
    Consensus CDS
    CCDS59044.1
    UniProtKB/Swiss-Prot
    Q8TD07
    Related
    ENSP00000356332.3, OTTHUMP00000017403, ENST00000367363.3, OTTHUMT00000042658
    Conserved Domains (1) summary
    cl08246
    Location:26159
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  2. NM_001243327.1NP_001230256.1  NKG2D ligand 4 isoform 3 precursor

    See identical proteins and their annotated locations for NP_001230256.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs at the 3' end compared to variant 1. This results in a frame-shift and a shorter isoform (3) with a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AY359075, EF489426
    Consensus CDS
    CCDS59042.1
    UniProtKB/Swiss-Prot
    Q8TD07
    Related
    ENSP00000432366.1, OTTHUMP00000229731, ENST00000529948.1, OTTHUMT00000384023
    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  3. NM_001243328.1NP_001230257.1  NKG2D ligand 4 isoform 4 precursor

    See identical proteins and their annotated locations for NP_001230257.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains an additional 5' non-coding exon, and an alternate 3' terminal exon compared to variant 1. This results in a frame-shift and shorter isoform (4) with a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AY359075
    Consensus CDS
    CCDS59043.1
    UniProtKB/Swiss-Prot
    Q8TD07
    Related
    ENSP00000437067.1, OTTHUMP00000229728, ENST00000532335.5, OTTHUMT00000384020
    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  4. NM_139165.2NP_631904.1  NKG2D ligand 4 isoform 1 precursor

    See identical proteins and their annotated locations for NP_631904.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AY069961, AY359075
    Consensus CDS
    CCDS5221.1
    UniProtKB/Swiss-Prot
    Q8TD07
    Related
    ENSP00000349709.4, OTTHUMP00000017404, ENST00000357183.8, OTTHUMT00000042659
    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 108 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p7 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p7 Primary Assembly

    Range
    149864399..149898353 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017010286.1XP_016865775.1  NKG2D ligand 4 isoform X2

    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  2. XM_017010287.1XP_016865776.1  NKG2D ligand 4 isoform X2

    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  3. XM_017010285.1XP_016865774.1  NKG2D ligand 4 isoform X2

    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  4. XM_011535475.2XP_011533777.1  NKG2D ligand 4 isoform X1

    See identical proteins and their annotated locations for XP_011533777.1

    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  5. XM_011535476.2XP_011533778.1  NKG2D ligand 4 isoform X1

    See identical proteins and their annotated locations for XP_011533778.1

    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  6. XM_011535479.2XP_011533781.1  NKG2D ligand 4 isoform X4

    See identical proteins and their annotated locations for XP_011533781.1

    UniProtKB/Swiss-Prot
    Q8TD07
    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  7. XM_011535478.2XP_011533780.1  NKG2D ligand 4 isoform X3

    Conserved Domains (1) summary
    cl08246
    Location:30195
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  8. XM_017010288.1XP_016865777.1  NKG2D ligand 4 isoform X5

Alternate CHM1_1.1

Genomic

  1. NC_018917.2 Alternate CHM1_1.1

    Range
    150469124..150481808 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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