Format

Send to:

Choose Destination

EPHB6 EPH receptor B6 [ Homo sapiens (human) ]

Gene ID: 2051, updated on 5-Mar-2019

Summary

Official Symbol
EPHB6provided by HGNC
Official Full Name
EPH receptor B6provided by HGNC
Primary source
HGNC:HGNC:3396
See related
Ensembl:ENSG00000106123 MIM:602757
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
HEP
Summary
This gene encodes a member of a family of transmembrane proteins that function as receptors for ephrin-B family proteins. Unlike other members of this family, the encoded protein does not contain a functional kinase domain. Activity of this protein can influence cell adhesion and migration. Expression of this gene is downregulated during tumor progression, suggesting that the protein may suppress tumor invasion and metastasis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013]
Expression
Biased expression in skin (RPKM 52.0), brain (RPKM 17.5) and 11 other tissues See more
Orthologs

Genomic context

See EPHB6 in Genome Data Viewer
Location:
7q34
Exon count:
21
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 7 NC_000007.14 (142854639..142871093)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (142552776..142568847)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene T cell receptor beta locus Neighboring gene uncharacterized LOC105375541 Neighboring gene T cell receptor beta variable 30 (gene/pseudogene) Neighboring gene transient receptor potential cation channel subfamily V member 6 Neighboring gene transient receptor potential cation channel subfamily V member 5

Genomic regions, transcripts, and products

Expression

  • 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 Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag The amplified luminescent proximity homogeneous assay (AlphaScreen) identifies the interaction of HIV-1 Gag with EPHB6 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Axon guidance, organism-specific biosystem (from KEGG)
    Axon guidance, organism-specific biosystemAxon guidance represents a key stage in the formation of neuronal network. Axons are guided by a variety of guidance factors, such as netrins, ephrins, Slits, and semaphorins. These guidance cues are...
  • Axon guidance, conserved biosystem (from KEGG)
    Axon guidance, conserved biosystemAxon guidance represents a key stage in the formation of neuronal network. Axons are guided by a variety of guidance factors, such as netrins, ephrins, Slits, and semaphorins. These guidance cues are...
  • Axon guidance, organism-specific biosystem (from REACTOME)
    Axon guidance, organism-specific biosystemAxon guidance / axon pathfinding is the process by which neurons send out axons to reach the correct targets. Growing axons have a highly motile structure at the growing tip called the growth cone, w...
  • Developmental Biology, organism-specific biosystem (from REACTOME)
    Developmental Biology, organism-specific biosystemAs a first step towards capturing the array of processes by which a fertilized egg gives rise to the diverse tissues of the body, examples of three kinds of processes have been annotated. These are a...
  • EPH-Ephrin signaling, organism-specific biosystem (from REACTOME)
    EPH-Ephrin signaling, organism-specific biosystemDuring the development process cell migration and adhesion are the main forces involved in morphing the cells into critical anatomical structures. The ability of a cell to migrate to its correct dest...
  • EPH-ephrin mediated repulsion of cells, organism-specific biosystem (from REACTOME)
    EPH-ephrin mediated repulsion of cells, organism-specific biosystemDespite high-affinity multimeric interaction between EPHs and ephrins (EFNs), the cellular response to EPH-EFN engagement is usually repulsion between the two cells and signal termination. These repu...
  • EPHB-mediated forward signaling, organism-specific biosystem (from REACTOME)
    EPHB-mediated forward signaling, organism-specific biosystemMultiple EPHB receptors contribute directly to dendritic spine development and morphogenesis. These are more broadly involved in post-synaptic development through activation of focal adhesion kinase ...
  • Ephrin signaling, organism-specific biosystem (from REACTOME)
    Ephrin signaling, organism-specific biosystemThe interaction between ephrin (EFN) ligands and EPH receptors results not only in forward signaling through the EPH receptor, but also in 'reverse' signaling through the EFN ligand itself. Reverse s...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC129910, MGC129911

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
ephrin receptor activity TAS
Traceable Author Statement
more info
PubMed 
signaling receptor activity TAS
Traceable Author Statement
more info
PubMed 
transmembrane receptor protein tyrosine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transmembrane-ephrin receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ephrin receptor signaling pathway TAS
Traceable Author Statement
more info
 
peptidyl-tyrosine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
transmembrane receptor protein tyrosine kinase signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cytosol TAS
Traceable Author Statement
more info
 
extracellular region TAS
Traceable Author Statement
more info
 
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
ephrin type-B receptor 6
Names
human kinase-defective Eph-family receptor protein
tyrosine-protein kinase-defective receptor EPH-6
NP_001267723.2
NP_001267724.2
NP_004436.4
XP_006715944.1
XP_011514181.1
XP_011514182.1
XP_011514183.1
XP_011514184.1
XP_024302442.1
XP_024302443.1

NCBI Reference Sequences (RefSeq)

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.

mRNA and Protein(s)

  1. NM_001280794.2NP_001267723.2  ephrin type-B receptor 6 isoform b

    See identical proteins and their annotated locations for NP_001267723.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks an exon in the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) has a shorter N-terminus, compared to isoform a. Both variants 2 and 3 encode the same isoform (b).
    Source sequence(s)
    AL832533, BC047892, BC056159, BX410199, HY096414
    Consensus CDS
    CCDS75672.1
    UniProtKB/TrEMBL
    J3KQU5
    Conserved Domains (7) summary
    smart00454
    Location:654714
    SAM; Sterile alpha motif
    cd00063
    Location:196287
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07699
    Location:1253
    GCC2_GCC3; GCC2 and GCC3
    pfam07714
    Location:378623
    Pkinase_Tyr; Protein tyrosine kinase
    pfam14575
    Location:320373
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl15755
    Location:653721
    SAM_superfamily; SAM (Sterile alpha motif )
    cl21453
    Location:373627
    PKc_like; Protein Kinases, catalytic domain
  2. NM_001280795.2NP_001267724.2  ephrin type-B receptor 6 isoform b

    See identical proteins and their annotated locations for NP_001267724.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 5' UTR, lacks an exon in the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) has a shorter N-terminus, compared to isoform a. Both variants 2 and 3 encode the same isoform (b).
    Source sequence(s)
    AL832533, BC047892, BC056159, BC110606, BX410199
    Consensus CDS
    CCDS75672.1
    UniProtKB/Swiss-Prot
    O15197
    UniProtKB/TrEMBL
    J3KQU5
    Related
    ENSP00000409061.3, ENST00000411471.6
    Conserved Domains (7) summary
    smart00454
    Location:654714
    SAM; Sterile alpha motif
    cd00063
    Location:196287
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07699
    Location:1253
    GCC2_GCC3; GCC2 and GCC3
    pfam07714
    Location:378623
    Pkinase_Tyr; Protein tyrosine kinase
    pfam14575
    Location:320373
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl15755
    Location:653721
    SAM_superfamily; SAM (Sterile alpha motif )
    cl21453
    Location:373627
    PKc_like; Protein Kinases, catalytic domain
  3. NM_004445.6NP_004436.4  ephrin type-B receptor 6 isoform a precursor

    See identical proteins and their annotated locations for NP_004436.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a).
    Source sequence(s)
    AC245427, AL532843, BC110607, BX419816, CN283345, CN283348
    Consensus CDS
    CCDS5873.2
    UniProtKB/Swiss-Prot
    O15197
    UniProtKB/TrEMBL
    F8WCM8
    Related
    ENSP00000404786.2, ENST00000422643.5
    Conserved Domains (7) summary
    cd09555
    Location:9461014
    SAM_EPH-B6; SAM domain of EPH-B6 subfamily of tyrosine kinase receptors
    cd10475
    Location:33232
    EphR_LBD_B6; Ligand Binding Domain of Ephrin type-B Receptor 6
    cd00063
    Location:371472
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:490572
    fn3; Fibronectin type III domain
    pfam07699
    Location:305346
    Ephrin_rec_like; Putative ephrin-receptor like
    pfam14575
    Location:613665
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl21453
    Location:666920
    PKc_like; Protein Kinases, catalytic domain

RNA

  1. NR_104001.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) includes an additional 5' exon and contains multiple differences in the internal exon structure, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    AL832533, BC047892, BC051028
    Related
    ENST00000611578.4

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p12 Primary Assembly

    Range
    142854639..142871093
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024446675.1XP_024302443.1  ephrin type-B receptor 6 isoform X4

    Conserved Domains (7) summary
    cd09555
    Location:914982
    SAM_EPH-B6; SAM domain of EPH-B6 subfamily of tyrosine kinase receptors
    cd10475
    Location:33232
    EphR_LBD_B6; Ligand Binding Domain of Ephrin type-B Receptor 6
    cd00063
    Location:489549
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:372472
    fn3; Fibronectin type III domain
    pfam07699
    Location:305346
    Ephrin_rec_like; Putative ephrin-receptor like
    pfam14575
    Location:582634
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl21453
    Location:635888
    PKc_like; Protein Kinases, catalytic domain
  2. XM_011515882.2XP_011514184.1  ephrin type-B receptor 6 isoform X3

    Conserved Domains (8) summary
    cd09555
    Location:915983
    SAM_EPH-B6; SAM domain of EPH-B6 subfamily of tyrosine kinase receptors
    smart00454
    Location:916976
    SAM; Sterile alpha motif
    cd10475
    Location:33232
    EphR_LBD_B6; Ligand Binding Domain of Ephrin type-B Receptor 6
    cd00063
    Location:371472
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07699
    Location:305346
    GCC2_GCC3; GCC2 and GCC3
    pfam07714
    Location:640885
    Pkinase_Tyr; Protein tyrosine kinase
    pfam14575
    Location:582635
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl21453
    Location:635889
    PKc_like; Protein Kinases, catalytic domain
  3. XM_011515881.3XP_011514183.1  ephrin type-B receptor 6 isoform X2

    Conserved Domains (8) summary
    cd09555
    Location:9451013
    SAM_EPH-B6; SAM domain of EPH-B6 subfamily of tyrosine kinase receptors
    smart00454
    Location:9461006
    SAM; Sterile alpha motif
    cd10475
    Location:33232
    EphR_LBD_B6; Ligand Binding Domain of Ephrin type-B Receptor 6
    cd00063
    Location:489580
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07699
    Location:305346
    GCC2_GCC3; GCC2 and GCC3
    pfam07714
    Location:671915
    Pkinase_Tyr; Protein tyrosine kinase
    pfam14575
    Location:613666
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl21453
    Location:666919
    PKc_like; Protein Kinases, catalytic domain
  4. XM_024446674.1XP_024302442.1  ephrin type-B receptor 6 isoform X1

    Conserved Domains (7) summary
    cd09555
    Location:9461014
    SAM_EPH-B6; SAM domain of EPH-B6 subfamily of tyrosine kinase receptors
    cd10475
    Location:33232
    EphR_LBD_B6; Ligand Binding Domain of Ephrin type-B Receptor 6
    cd00063
    Location:371472
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:490572
    fn3; Fibronectin type III domain
    pfam07699
    Location:305346
    Ephrin_rec_like; Putative ephrin-receptor like
    pfam14575
    Location:613665
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl21453
    Location:666920
    PKc_like; Protein Kinases, catalytic domain
  5. XM_011515879.1XP_011514181.1  ephrin type-B receptor 6 isoform X1

    See identical proteins and their annotated locations for XP_011514181.1

    UniProtKB/TrEMBL
    F8WCM8
    Conserved Domains (7) summary
    cd09555
    Location:9461014
    SAM_EPH-B6; SAM domain of EPH-B6 subfamily of tyrosine kinase receptors
    cd10475
    Location:33232
    EphR_LBD_B6; Ligand Binding Domain of Ephrin type-B Receptor 6
    cd00063
    Location:371472
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:490572
    fn3; Fibronectin type III domain
    pfam07699
    Location:305346
    Ephrin_rec_like; Putative ephrin-receptor like
    pfam14575
    Location:613665
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl21453
    Location:666920
    PKc_like; Protein Kinases, catalytic domain
  6. XM_011515880.1XP_011514182.1  ephrin type-B receptor 6 isoform X1

    See identical proteins and their annotated locations for XP_011514182.1

    UniProtKB/TrEMBL
    F8WCM8
    Conserved Domains (7) summary
    cd09555
    Location:9461014
    SAM_EPH-B6; SAM domain of EPH-B6 subfamily of tyrosine kinase receptors
    cd10475
    Location:33232
    EphR_LBD_B6; Ligand Binding Domain of Ephrin type-B Receptor 6
    cd00063
    Location:371472
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:490572
    fn3; Fibronectin type III domain
    pfam07699
    Location:305346
    Ephrin_rec_like; Putative ephrin-receptor like
    pfam14575
    Location:613665
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl21453
    Location:666920
    PKc_like; Protein Kinases, catalytic domain
  7. XM_006715881.2XP_006715944.1  ephrin type-B receptor 6 isoform X1

    UniProtKB/TrEMBL
    F8WCM8
    Related
    ENSP00000481994.1, ENST00000619012.4
    Conserved Domains (7) summary
    cd09555
    Location:9461014
    SAM_EPH-B6; SAM domain of EPH-B6 subfamily of tyrosine kinase receptors
    cd10475
    Location:33232
    EphR_LBD_B6; Ligand Binding Domain of Ephrin type-B Receptor 6
    cd00063
    Location:371472
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam00041
    Location:490572
    fn3; Fibronectin type III domain
    pfam07699
    Location:305346
    Ephrin_rec_like; Putative ephrin-receptor like
    pfam14575
    Location:613665
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
    cl21453
    Location:666920
    PKc_like; Protein Kinases, catalytic domain

Reference GRCh38.p12 ALT_REF_LOCI_1

Genomic

  1. NT_187562.1 Reference GRCh38.p12 ALT_REF_LOCI_1

    Range
    878070..894136
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center