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EXPH5 exophilin 5 [ Homo sapiens (human) ]

Gene ID: 23086, updated on 7-Apr-2024

Summary

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Official Symbol
EXPH5provided by HGNC
Official Full Name
exophilin 5provided by HGNC
Primary source
HGNC:HGNC:30578
See related
Ensembl:ENSG00000110723 MIM:612878; AllianceGenome:HGNC:30578
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
EBS4; SLAC2B; SLAC2-B
Summary
The protein encoded by this gene is a member of the synaptotagmin-like protein (Slp) family lacking a C2 domain. It contains an N-terminal synaptotagmin-like homology domain (SHD), and is a ras-related protein Rab-27B effector protein. This protein is thought to be involved in exosome secretion and intracellular vesicle trafficking. Reduced expression of this gene results in keratin filament defects. Mutations in this gene have been associated with some cases of epidermolysis bullosa, an inherited skin fragility disorder. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Aug 2015]
Expression
Biased expression in skin (RPKM 9.2), esophagus (RPKM 2.8) and 9 other tissues See more
Orthologs
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Genomic context

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See EXPH5 in Genome Data Viewer
Location:
11q22.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (108505435..108607536, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (108512926..108615040, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (108376162..108464495, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATM serine/threonine kinase Neighboring gene MPRA-validated peak1451 silencer Neighboring gene chromosome 11 open reading frame 65 Neighboring gene MPRA-validated peak1452 silencer Neighboring gene MPRA-validated peak1453 silencer Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:108273376 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:108294773 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:108301322 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:108309656 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:108323261 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:108333620 Neighboring gene Sharpr-MPRA regulatory region 13200 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:108337475-108338327 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:108344264 Neighboring gene uncharacterized LOC124902749 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:108353409-108353587 Neighboring gene uncharacterized LOC112267909 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3878 Neighboring gene protein O-glucosyltransferase 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:108427339-108427512 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5488 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3879 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3880 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3881 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:108487156-108488355 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5489 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5490 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5491 Neighboring gene inversion(11)(p15q22) DEAD (Asp-Glu-Ala-Asp) box polypeptide 10 recombination region Neighboring gene uncharacterized LOC124902750 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5492 Neighboring gene DEAD-box helicase 10 Neighboring gene ribosomal protein S2 pseudogene 39

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Revealing EXPH5 as a potential diagnostic gene biomarker of the late stage of COPD based on machine learning analysis. Yang Y, et al. Comput Biol Med, 2023 Mar. PMID 36746116
  2. Slac2-b Coordinates Extracellular Vesicle Secretion to Regulate Keratinocyte Adhesion and Migration. Bare Y, et al. J Invest Dermatol, 2021 Mar. PMID 32890627
  3. Association of Epidermolysis Bullosa Simplex With Mottled Pigmentation and EXPH5 Mutations. Turcan I, et al. JAMA Dermatol, 2016 Oct 1. PMID 27384765
  4. Mutations in EXPH5 underlie a rare subtype of autosomal recessive epidermolysis bullosa simplex. Rashidghamat E, et al. Br J Dermatol, 2016 Feb. PMID 26211931
  5. Molecular heterogeneity of epidermolysis bullosa simplex: contribution of EXPH5 mutations. Pigors M, et al. J Invest Dermatol, 2014 Mar. PMID 24005056

See all (38) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Revealing EXPH5 as a potential diagnostic gene biomarker of the late stage of COPD based on machine learning analysis.
    Title: Revealing EXPH5 as a potential diagnostic gene biomarker of the late stage of COPD based on machine learning analysis.
  2. Slac2-b Coordinates Extracellular Vesicle Secretion to Regulate Keratinocyte Adhesion and Migration.
    Title: Slac2-b Coordinates Extracellular Vesicle Secretion to Regulate Keratinocyte Adhesion and Migration.
  3. SLAC2B-dependent microtubule acetylation regulates extracellular matrix-mediated intracellular TM4SF5 traffic to the plasma membranes.
    Title: SLAC2B-dependent microtubule acetylation regulates extracellular matrix-mediated intracellular TM4SF5 traffic to the plasma membranes.
  4. both mutations were homozygous and were predicted to result in the absence (EXPH5) or very low levels (COL17A1) of the corresponding protein products, with ultrastructural findings in the skin consistent with the presence of two subtypes, the simplex and the junctional forms, of the disease.
    Title: Next generation sequencing identifies double homozygous mutations in two distinct genes (EXPH5 and COL17A1) in a patient with concomitant simplex and junctional epidermolysis bullosa.
  5. Mutations in EXPH5 protein, human have been implicated in the physiopathology of Epidermolysis bullosa simplex.
    Title: Association of Epidermolysis Bullosa Simplex With Mottled Pigmentation and EXPH5 Mutations.
  6. The results identify a further EXPH5 pedigree suggest that mutations in EXPH5 should be considered as a possible candidate gene for recessive or sporadic cases of mild generalized EBS.
    Title: Mutations in EXPH5 underlie a rare subtype of autosomal recessive epidermolysis bullosa simplex.
  7. Here, we report the second family with two EXPH5 mutations in epidermolysis bullosa simplex.
    Title: Molecular heterogeneity of epidermolysis bullosa simplex: contribution of EXPH5 mutations.
  8. our findings identify an unexpected role for Slac2-b in inherited skin fragility and expand the clinical spectrum of human disorders of GTPase effector proteins.
    Title: Germline Mutation in EXPH5 Implicates the Rab27B Effector Protein Slac2-b in Inherited Skin Fragility.
  9. Slac2-b/KIAA0624 contains an N-terminal Slp homology domain (SHD) (PMID: 11327731). The SHD of Slac2-b specifically and directly binds the GTP-bound form of Rab27A (J. Biol. Chem. 277, (2002) 9212-9218; PMID: 11773082).
    Title: The Slp homology domain of synaptotagmin-like proteins 1-4 and Slac2 functions as a novel Rab27A binding domain.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Silencing of SLAC2B by shRNA inhibits HIV-1 replication in Jurkat cells PubMed

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag Silencing the expression of SLAC2B leads to a diffuse intracellular HIV-1 Gag staining pattern accompanied by a dramatic reduction in the association of Gag with the plasma membrane PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA0624, MGC133291, MGC134967, DKFZp586F1223, DKFZp781H0795

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables small GTPase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in intracellular protein transport IEA
Inferred from Electronic Annotation
more info
  
involved_in keratinocyte development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in multivesicular body sorting pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in multivesicular body sorting pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of exocytosis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of protein secretion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of protein secretion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endosome IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
exophilin-5
Names
slp homolog lacking C2 domains b
synaptotagmin-like homologue lacking C2 domains b
synaptotagmin-like protein homolog lacking C2 domains b

NCBI Reference Sequences (RefSeq)

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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_042852.2 RefSeqGene

    Range
    18768..107101
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001144763.2 → NP_001138235.1  exophilin-5 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) represents use of an alternate promoter and therefore differs in the 5' UTR and 5' coding region, compared to variant 1. These differences cause translation initiation at a downstream start codon and result in an isoform (4) with a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AL050204, AP002453, AP005718, BC117701, CR627226, KF455497
    UniProtKB/TrEMBL
    Q149M6
    Related
    ENSP00000432683.1, ENST00000526312.5

  2. NM_001144764.2 → NP_001138236.1  exophilin-5 isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) represents use of an alternate promoter and therefore differs in the 5' UTR and 5' coding region, compared to variant 1. These differences cause translation initiation at a downstream start codon and result in an isoform (5) with a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AK303993, AL050204, AP005718, BC117701, KF455497
    UniProtKB/TrEMBL
    Q149M6

  3. NM_001144765.2 → NP_001138237.1  exophilin-5 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) represents use of an alternate promoter and therefore differs in the 5' UTR and 5' coding region, compared to variant 1. These differences cause translation initiation at a downstream start codon and result in an isoform (3) with a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AI203086, AK304212, AL050204, AP005718, BC117701, KF455497
    UniProtKB/TrEMBL
    Q149M6

  4. NM_001308019.2 → NP_001294948.1  exophilin-5 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate exon in the 5' coding region that results in use of an alternate start codon compared to variant 1. It encodes isoform 2, which is shorter than and has a distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AB014524, AL050204, AP002453, AP005718, BC031034, BC117701, BU527461
    Consensus CDS
    CCDS76473.1
    UniProtKB/TrEMBL
    Q149M6
    Related
    ENSP00000432546.1, ENST00000525344.5
    Conserved Domains (1) summary
    cl22851
    Location:4 → 39
    PHD_SF; PHD finger superfamily

  5. NM_015065.3 → NP_055880.2  exophilin-5 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AI203086, AP002453, AP005718, BC117701, BP358360, KF455497
    Consensus CDS
    CCDS8341.1
    UniProtKB/Swiss-Prot
    Q2KHM1, Q8NEV8, Q9Y4D6
    UniProtKB/TrEMBL
    Q149M6
    Related
    ENSP00000265843.4, ENST00000265843.9
    Conserved Domains (1) summary
    cl22851
    Location:11 → 46
    PHD_SF; PHD finger superfamily

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    108505435..108607536 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017017398.2 → XP_016872887.2  exophilin-5 isoform X2

  2. XM_017017397.2 → XP_016872886.2  exophilin-5 isoform X1

  3. XM_047426624.1 → XP_047282580.1  exophilin-5 isoform X3

  4. XM_011542696.3 → XP_011540998.1  exophilin-5 isoform X4

    See identical proteins and their annotated locations for XP_011540998.1

    UniProtKB/TrEMBL
    Q149M6

  5. XM_047426627.1 → XP_047282583.1  exophilin-5 isoform X4

  6. XM_011542700.3 → XP_011541002.1  exophilin-5 isoform X4

    See identical proteins and their annotated locations for XP_011541002.1

    UniProtKB/TrEMBL
    Q149M6

  7. XM_017017400.2 → XP_016872889.1  exophilin-5 isoform X4

    UniProtKB/TrEMBL
    Q149M6

  8. XM_047426626.1 → XP_047282582.1  exophilin-5 isoform X4

  9. XM_011542698.3 → XP_011541000.1  exophilin-5 isoform X4

    See identical proteins and their annotated locations for XP_011541000.1

    UniProtKB/TrEMBL
    Q149M6

  10. XM_047426629.1 → XP_047282585.1  exophilin-5 isoform X7

  11. XM_047426628.1 → XP_047282584.1  exophilin-5 isoform X5

  12. XM_017017403.2 → XP_016872892.1  exophilin-5 isoform X6

    UniProtKB/TrEMBL
    Q149M6

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    108512926..108615040 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054368126.1 → XP_054224101.1  exophilin-5 isoform X8

  2. XM_054368125.1 → XP_054224100.1  exophilin-5 isoform X4

  3. XM_054368128.1 → XP_054224103.1  exophilin-5 isoform X3

  4. XM_054368127.1 → XP_054224102.1  exophilin-5 isoform X9

  5. XM_054368134.1 → XP_054224109.1  exophilin-5 isoform X4

  6. XM_054368131.1 → XP_054224106.1  exophilin-5 isoform X4

  7. XM_054368129.1 → XP_054224104.1  exophilin-5 isoform X4

  8. XM_054368132.1 → XP_054224107.1  exophilin-5 isoform X4

  9. XM_054368130.1 → XP_054224105.1  exophilin-5 isoform X4

  10. XM_054368133.1 → XP_054224108.1  exophilin-5 isoform X4

  11. XM_054368137.1 → XP_054224112.1  exophilin-5 isoform X7

  12. XM_054368135.1 → XP_054224110.1  exophilin-5 isoform X5

  13. XM_054368136.1 → XP_054224111.1  exophilin-5 isoform X6

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8NEV8.4 GenPept UniProtKB/Swiss-Prot:Q8NEV8

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