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SCAMP2 secretory carrier membrane protein 2 [ Homo sapiens (human) ]

Gene ID: 10066, updated on 6-Oct-2024

Summary

Official Symbol
SCAMP2provided by HGNC
Official Full Name
secretory carrier membrane protein 2provided by HGNC
Primary source
HGNC:HGNC:10564
See related
Ensembl:ENSG00000140497 MIM:606912; AllianceGenome:HGNC:10564
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
Summary
This gene product belongs to the SCAMP family of proteins which are secretory carrier membrane proteins. They function as carriers to the cell surface in post-golgi recycling pathways. Different family members are highly related products of distinct genes, and are usually expressed together. These findings suggest that the SCAMPs may function at the same site during vesicular transport rather than in separate pathways. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Mar 2016]
Expression
Ubiquitous expression in colon (RPKM 41.0), small intestine (RPKM 37.7) and 25 other tissues See more
Orthologs
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Genomic context

See SCAMP2 in Genome Data Viewer
Location:
15q24.1
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (74843730..74873365, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (72713576..72743194, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (75136071..75165706, complement)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370897 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9808 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:75128807-75129383 Neighboring gene complexin 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:75131867-75132014 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75134491-75135016 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75135085-75135996 Neighboring gene microRNA 6882 Neighboring gene unc-51 like kinase 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9809 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9810 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9811 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9812 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9813 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9814 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75157901-75158832 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75161878-75162388 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75162904-75163889 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9815 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:75182299-75182832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:75191053-75191552 Neighboring gene mannose phosphate isomerase Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:75197802-75198608 Neighboring gene family with sequence similarity 219 member B Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:75198609-75199413 Neighboring gene cytochrome c oxidase subunit 5A Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6661

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues 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
Genome-wide meta-analysis identifies regions on 7p21 (AHR) and 15q24 (CYP1A2) as determinants of habitual caffeine consumption.
EBI GWAS Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

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

General protein information

Preferred Names
secretory carrier-associated membrane protein 2
Names
testis secretory sperm-binding protein Li 219p

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.

mRNA and Protein(s)

  1. NM_001320778.2NP_001307707.1  secretory carrier-associated membrane protein 2 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC091230, AK291884, CD300387, R59393
    UniProtKB/TrEMBL
    Q6IBK3
    Conserved Domains (1) summary
    pfam04144
    Location:160336
    SCAMP; SCAMP family
  2. NM_005697.5NP_005688.2  secretory carrier-associated membrane protein 2 isoform 2

    See identical proteins and their annotated locations for NP_005688.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks a exon in the central coding region compared to variant 1. The encoded isoform (2) is sorter than isoform 2.
    Source sequence(s)
    AC091230, BC004385, R59393
    Consensus CDS
    CCDS10271.1
    UniProtKB/Swiss-Prot
    B2RDF0, O15127, Q9BQE8
    UniProtKB/TrEMBL
    A0A140VK92, Q6IBK3
    Related
    ENSP00000268099.9, ENST00000268099.13
    Conserved Domains (1) summary
    pfam04144
    Location:117293
    SCAMP; SCAMP family

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    74843730..74873365 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    72713576..72743194 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)