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SURF4 surfeit 4 [ Homo sapiens (human) ]

Gene ID: 6836, updated on 14-Jun-2020

Summary

Official Symbol
SURF4provided by HGNC
Official Full Name
surfeit 4provided by HGNC
Primary source
HGNC:HGNC:11476
See related
Ensembl:ENSG00000148248 MIM:185660
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
ERV29
Summary
This gene is located in the surfeit gene cluster, which is comprised of very tightly linked housekeeping genes that do not share sequence similarity. The encoded protein is a conserved integral membrane protein that interacts with endoplasmic reticulum-Golgi intermediate compartment proteins. Disruption of this gene results in reduced numbers of endoplasmic reticulum-Golgi intermediate compartment clusters and redistribution of coat protein I to the cytosol. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013]
Expression
Ubiquitous expression in duodenum (RPKM 40.0), small intestine (RPKM 39.7) and 25 other tissues See more
Orthologs

Genomic context

See SURF4 in Genome Data Viewer
Location:
9q34.2
Exon count:
11
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (133361449..133377949, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (136228325..136244820, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene SURF1 cytochrome c oxidase assembly factor Neighboring gene surfeit 2 Neighboring gene serine/threonine kinase like domain containing 1 Neighboring gene REX4 homolog, 3'-5' exonuclease Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif 13 Neighboring gene calcium channel flower domain containing 1

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 Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genetic associations for activated partial thromboplastin time and prothrombin time, their gene expression profiles, and risk of coronary artery disease.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope transmembrane glycoprotein gp41 env HIV-1 gp41 is identified to have a physical interaction with surfeit 4 (SURF4) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ22993, MGC102753

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
Golgi organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
NOT early endosome to Golgi transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
neutrophil degranulation TAS
Traceable Author Statement
more info
 
positive regulation of organelle organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
NOT protein exit from endoplasmic reticulum IMP
Inferred from Mutant Phenotype
more info
PubMed 
retrograde vesicle-mediated transport, Golgi to ER TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
Golgi membrane TAS
Traceable Author Statement
more info
 
azurophil granule membrane TAS
Traceable Author Statement
more info
 
cytosol IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
endoplasmic reticulum-Golgi intermediate compartment IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum-Golgi intermediate compartment membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 
transport vesicle TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
surfeit locus protein 4
Names
surface 4 integral membrane protein

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_001280788.1NP_001267717.1  surfeit locus protein 4 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate 5'-most exon and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct and shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AL593848, BM557312, BQ001856, BX647961
    Conserved Domains (1) summary
    pfam02077
    Location:2254
    SURF4; SURF4 family
  2. NM_001280789.2NP_001267718.1  surfeit locus protein 4 isoform 3

    See identical proteins and their annotated locations for NP_001267718.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses two alternate splice sites in its 3' coding region, compared to variant 1. The encoded isoform (3) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AF078867, BX647961, DC424374
    Consensus CDS
    CCDS65178.1
    UniProtKB/Swiss-Prot
    O15260
    Related
    ENSP00000419853.2, ENST00000485435.6
    Conserved Domains (1) summary
    cl21527
    Location:4157
    DoxX; DoxX
  3. NM_001280790.1NP_001267719.1  surfeit locus protein 4 isoform 4

    See identical proteins and their annotated locations for NP_001267719.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains an alternate exon in its 5' UTR and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus, compared to isoform 1. Both variants 4 and 5 encode the same isoform.
    Source sequence(s)
    AK295435, BQ001856, BX647961, DC424374
    Consensus CDS
    CCDS75929.1
    UniProtKB/TrEMBL
    B7Z1G8
    Related
    ENSP00000483216.1, ENST00000618229.4
    Conserved Domains (1) summary
    cl21527
    Location:1226
    DoxX; DoxX
  4. NM_001280791.1NP_001267720.1  surfeit locus protein 4 isoform 4

    See identical proteins and their annotated locations for NP_001267720.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses an alternate splice site in its 5' UTR and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus, compared to isoform 1. Both variants 4 and 5 encode the same isoform.
    Source sequence(s)
    AK316480, BQ001856, BX647961, DC424374
    Consensus CDS
    CCDS75929.1
    UniProtKB/TrEMBL
    B7Z1G8
    Related
    ENSP00000481666.1, ENST00000613129.4
    Conserved Domains (1) summary
    cl21527
    Location:1226
    DoxX; DoxX
  5. NM_001280792.1NP_001267721.1  surfeit locus protein 4 isoform 5

    See identical proteins and their annotated locations for NP_001267721.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks an exon in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (5) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AK300004, BQ001856, BX647961, DC424374
    Consensus CDS
    CCDS65177.1
    UniProtKB/Swiss-Prot
    O15260
    Related
    ENSP00000446061.1, ENST00000545297.5
    Conserved Domains (1) summary
    cl21527
    Location:4119
    DoxX; DoxX
  6. NM_001280793.1NP_001267722.1  surfeit locus protein 4 isoform 6

    See identical proteins and their annotated locations for NP_001267722.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) lacks an exon in its 5' UTR and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (6) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    BQ001856, BX647961, DA842525, DC424374
    Conserved Domains (1) summary
    cl21527
    Location:1152
    DoxX; DoxX
  7. NM_033161.4NP_149351.1  surfeit locus protein 4 isoform 1

    See identical proteins and their annotated locations for NP_149351.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    BC018741, BX647961, DC424374
    Consensus CDS
    CCDS6968.1
    UniProtKB/Swiss-Prot
    O15260
    Related
    ENSP00000361057.3, ENST00000371989.8
    Conserved Domains (1) summary
    pfam02077
    Location:4269
    SURF4; SURF4 family

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p13 Primary Assembly

    Range
    133361449..133377949 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011518944.2XP_011517246.1  surfeit locus protein 4 isoform X1

    See identical proteins and their annotated locations for XP_011517246.1

    UniProtKB/TrEMBL
    B7Z7A8
    Conserved Domains (1) summary
    pfam02077
    Location:4260
    SURF4; SURF4 family
  2. XM_017015062.1XP_016870551.1  surfeit locus protein 4 isoform X3

  3. XM_011518943.1XP_011517245.1  surfeit locus protein 4 isoform X1

    See identical proteins and their annotated locations for XP_011517245.1

    UniProtKB/TrEMBL
    B7Z7A8
    Conserved Domains (1) summary
    pfam02077
    Location:4260
    SURF4; SURF4 family
  4. XM_011518945.3XP_011517247.1  surfeit locus protein 4 isoform X2

    See identical proteins and their annotated locations for XP_011517247.1

    Conserved Domains (1) summary
    cl21527
    Location:110206
    DoxX; DoxX

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_009646201.1 Reference GRCh38.p13 PATCHES

    Range
    187543..204043 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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