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SURF4 surfeit 4 [ Homo sapiens (human) ]

Gene ID: 6836, updated on 5-May-2024

Summary

Official Symbol
SURF4provided by HGNC
Official Full Name
surfeit 4provided by HGNC
Primary source
HGNC:HGNC:11476
See related
Ensembl:ENSG00000148248 MIM:185660; AllianceGenome:HGNC:11476
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
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Genomic context

Location:
9q34.2
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (133361464..133377949, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (145575418..145591909, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (136228340..136244820, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20452 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20453 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29237 Neighboring gene SURF1 cytochrome c oxidase assembly factor Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:136234564-136235235 Neighboring gene surfeit 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20454 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20455 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20456 Neighboring gene serine/threonine kinase like domain containing 1 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr9:136257045-136257682 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:136265498-136266135 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:136267839-136268006 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:136269742-136270242 Neighboring gene REX4 homolog, 3'-5' exonuclease Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20457 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29238 Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif 13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29239 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29240 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29241 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20458 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:136295843-136296052 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:136321575-136321727 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:136322178-136323045 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20459 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20460 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20461 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:136327558-136328114 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29242 Neighboring gene uncharacterized LOC124902295 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

EBI GWAS Catalog

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

Clone Names

  • FLJ22993, MGC102753

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables COPII receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables cargo receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables cargo receptor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in COPII-coated vesicle cargo loading ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in Golgi organization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in Golgi organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
NOT involved_in early endosome to Golgi transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in lipid export from cell IEA
Inferred from Electronic Annotation
more info
 
involved_in lipid homeostasis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in lipoprotein transport IDA
Inferred from Direct Assay
more info
PubMed 
involved_in lipoprotein transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in lipoprotein transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of organelle organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
NOT involved_in protein exit from endoplasmic reticulum IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of lipid transport IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
is_active_in COPII-coated ER to Golgi transport vesicle IDA
Inferred from Direct Assay
more info
PubMed 
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
 
located_in Golgi membrane TAS
Traceable Author Statement
more info
 
located_in azurophil granule membrane TAS
Traceable Author Statement
more info
 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 
is_active_in endoplasmic reticulum exit site IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
is_active_in endoplasmic reticulum-Golgi intermediate compartment IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endoplasmic reticulum-Golgi intermediate compartment IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum-Golgi intermediate compartment membrane IEA
Inferred from Electronic Annotation
more info
 
located_in nuclear membrane IDA
Inferred from Direct Assay
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
located_in 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)

NEW Try the new Transcript table

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_001280788.2NP_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, BX647961
    UniProtKB/TrEMBL
    B7Z8F3
    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/TrEMBL
    Q5T8U5
    Related
    ENSP00000419853.2, ENST00000485435.6
    Conserved Domains (1) summary
    cl21527
    Location:4157
    DoxX; DoxX
  3. NM_001280790.2NP_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, BX647961
    Consensus CDS
    CCDS75929.1
    UniProtKB/TrEMBL
    A0A024R8C4, B7Z1G8, B7Z8F3
    Related
    ENSP00000483216.1, ENST00000618229.4
    Conserved Domains (1) summary
    cl21527
    Location:1226
    DoxX; DoxX
  4. NM_001280791.2NP_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, BX647961
    Consensus CDS
    CCDS75929.1
    UniProtKB/TrEMBL
    A0A024R8C4, B7Z1G8, B7Z8F3
    Related
    ENSP00000481666.1, ENST00000613129.4
    Conserved Domains (1) summary
    cl21527
    Location:1226
    DoxX; DoxX
  5. NM_001280792.2NP_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, 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_001280793.2NP_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)
    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
    B7Z6A4, O15260, O60923, Q5T8U6, Q9UNZ0, Q9UNZ1
    UniProtKB/TrEMBL
    B7Z8F3
    Related
    ENSP00000361057.3, ENST00000371989.8
    Conserved Domains (1) summary
    pfam02077
    Location:4269
    SURF4; SURF4 family

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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    133361464..133377949 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011518944.3XP_011517246.1  surfeit locus protein 4 isoform X2

    See identical proteins and their annotated locations for XP_011517246.1

    UniProtKB/TrEMBL
    B7Z7A8, B7Z8F3
    Conserved Domains (1) summary
    pfam02077
    Location:4260
    SURF4; SURF4 family
  2. XM_047423807.1XP_047279763.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  3. XM_047423808.1XP_047279764.1  surfeit locus protein 4 isoform X4

    UniProtKB/TrEMBL
    A0A024R8C4, B7Z1G8
  4. XM_047423805.1XP_047279761.1  surfeit locus protein 4 isoform X1

  5. XM_047423804.1XP_047279760.1  surfeit locus protein 4 isoform X1

  6. XM_047423806.1XP_047279762.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  7. XM_047423803.1XP_047279759.1  surfeit locus protein 4 isoform X1

  8. XM_011518945.4XP_011517247.1  surfeit locus protein 4 isoform X3

    See identical proteins and their annotated locations for XP_011517247.1

    Conserved Domains (1) summary
    cl21527
    Location:110206
    DoxX; DoxX
  9. XM_047423802.1XP_047279758.1  surfeit locus protein 4 isoform X1

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_009646201.1 Reference GRCh38.p14 PATCHES

    Range
    187558..204043 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054331589.1XP_054187564.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  2. XM_054331588.1XP_054187563.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  3. XM_054331591.1XP_054187566.1  surfeit locus protein 4 isoform X4

    UniProtKB/TrEMBL
    A0A024R8C4, B7Z1G8
  4. XM_054331587.1XP_054187562.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  5. XM_054331590.1XP_054187565.1  surfeit locus protein 4 isoform X3

  6. XM_054331586.1XP_054187561.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  7. XM_054331585.1XP_054187560.1  surfeit locus protein 4 isoform X1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    145575418..145591909 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054363649.1XP_054219624.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  2. XM_054363648.1XP_054219623.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  3. XM_054363651.1XP_054219626.1  surfeit locus protein 4 isoform X4

    UniProtKB/TrEMBL
    A0A024R8C4, B7Z1G8
  4. XM_054363647.1XP_054219622.1  surfeit locus protein 4 isoform X2

    UniProtKB/TrEMBL
    B7Z7A8
  5. XM_054363650.1XP_054219625.1  surfeit locus protein 4 isoform X3

  6. XM_054363646.1XP_054219621.1  surfeit locus protein 4 isoform X1