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SCAMP3 secretory carrier membrane protein 3 [ Homo sapiens (human) ]

Gene ID: 10067, updated on 1-Jun-2020

Summary

Official Symbol
SCAMP3provided by HGNC
Official Full Name
secretory carrier membrane protein 3provided by HGNC
Primary source
HGNC:HGNC:10565
See related
Ensembl:ENSG00000116521 MIM:606913
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
C1orf3
Summary
This gene encodes an integral membrane protein that belongs to the secretory carrier membrane protein family. The encoded protein functions as a carrier to the cell surface in post-golgi recycling pathways. This protein is also involved in protein trafficking in endosomal pathways. Two transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, May 2011]
Expression
Ubiquitous expression in thyroid (RPKM 20.0), placenta (RPKM 19.2) and 25 other tissues See more
Orthologs

Genomic context

See SCAMP3 in Genome Data Viewer
Location:
1q22
Exon count:
9
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (155255981..155262360, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (155225770..155232176, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene GBA recombination region Neighboring gene glucosylceramidase beta Neighboring gene family with sequence similarity 189 member B Neighboring gene CDC like kinase 2 Neighboring gene hyperpolarization activated cyclic nucleotide gated potassium channel 3 Neighboring gene pyruvate kinase L/R

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
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies upregulation of secretory carrier membrane protein 3 (SCAMP3) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed
Vpu vpu HIV-1 Vpu is identified to have a physical interaction with secretory carrier membrane protein 3 (SCAMP3) 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

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
post-Golgi vesicle-mediated transport TAS
Traceable Author Statement
more info
PubMed 
protein transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
Golgi apparatus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Golgi membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular exosome HDA PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
recycling endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
trans-Golgi network membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
secretory carrier-associated membrane protein 3
Names
propin 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_005698.4NP_005689.2  secretory carrier-associated membrane protein 3 isoform 1

    See identical proteins and their annotated locations for NP_005689.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL713999, BC000161, BU193466
    Consensus CDS
    CCDS1105.1
    UniProtKB/Swiss-Prot
    O14828
    Related
    ENSP00000307275.3, ENST00000302631.8
    Conserved Domains (1) summary
    pfam04144
    Location:132307
    SCAMP; SCAMP family
  2. NM_052837.3NP_443069.1  secretory carrier-associated membrane protein 3 isoform 2

    See identical proteins and their annotated locations for NP_443069.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    BC010505, BM790077, BU193466
    Consensus CDS
    CCDS1106.1
    UniProtKB/Swiss-Prot
    O14828
    Related
    ENSP00000347540.3, ENST00000355379.3
    Conserved Domains (1) summary
    pfam04144
    Location:106281
    SCAMP; SCAMP 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_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    155255981..155262360 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_1

Genomic

  1. NW_003315906.1 Reference GRCh38.p13 ALT_REF_LOCI_1

    Range
    61004..67383 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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