SCAMP1 secretory carrier membrane protein 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SCAMP1provided by HGNC
Official Full Name: secretory carrier membrane protein 1provided by HGNC
Primary source: HGNC:HGNC:10563
See related: Ensembl:ENSG00000085365 MIM:606911; AllianceGenome:HGNC:10563
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: SCAMP; SCAMP37
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 these protein family members may function at the same site during vesicular transport rather than in separate pathways. A pseudogene of this gene has been defined on chromosome 1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2014]
Expression: Ubiquitous expression in brain (RPKM 21.2), thyroid (RPKM 14.8) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 5q14.1

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	5	NC_000005.10 (78360617..78480739)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	5	NC_060929.1 (78842266..78962217)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	5	NC_000005.9 (77656441..77776562)

Chromosome 5 - NC_000005.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Multiomics Analysis of Endocytosis upon HBV Infection and Identification of SCAMP1 as a Novel Host Restriction Factor against HBV Replication.
Title: Multiomics Analysis of Endocytosis upon HBV Infection and Identification of SCAMP1 as a Novel Host Restriction Factor against HBV Replication.
Prognostic role of SCAMP family in acute myeloid leukemia.
Title: Prognostic role of SCAMP family in acute myeloid leukemia.
Long Noncoding RNA SCAMP1 Targets miR-137/CXCL12 Axis to Boost Cell Invasion and Angiogenesis in Ovarian Cancer
Title: Long Noncoding RNA SCAMP1 Targets miR-137/CXCL12 Axis to Boost Cell Invasion and Angiogenesis in Ovarian Cancer.
SCAMP1 enhances Mtss1 anti-invasive function in HER2+/ER-/PR- breast cancer, by promoting its protein trafficking leading to elevated levels of RAC1-GTP and increased cell-cell adhesions.
Title: MTSS1 and SCAMP1 cooperate to prevent invasion in breast cancer.
RNA interference-mediated downregulation of SCAMP1 resulted in a marked reduction in cell migration and invasion, but not proliferation in tumor cell lines.
Title: Inhibition of SCAMP1 suppresses cell migration and invasion in human pancreatic and gallbladder cancer cells.
Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.

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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

EBI GWAS Catalog

Description
Hippocampal atrophy as a quantitative trait in a genome-wide association study identifying novel susceptibility genes for Alzheimer's disease. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-81307 (e-PCR)
- UniSTS:102675

D5S1690E (e-PCR)
- UniSTS:151078

D8S2279 (e-PCR)
- UniSTS:473907

SHGC-132376 (e-PCR)
- UniSTS:170803

sY3084 (e-PCR)
- UniSTS:515126

SHGC-148104 (e-PCR)
- UniSTS:176195

L18426 (e-PCR)
- UniSTS:34648

A009A26 (e-PCR)
- UniSTS:13409

D5S1854 (e-PCR)
- UniSTS:22126

SHGC-24296 (e-PCR)
- UniSTS:22127

SCAMP1 (e-PCR)
- UniSTS:504957

SCAMP1_1839 (e-PCR)
- UniSTS:280977

D5S1734 (e-PCR)
- UniSTS:21674

SHGC-105737 (e-PCR)
- UniSTS:169405

RH91729 (e-PCR)
- UniSTS:91853

RH36123 (e-PCR)
- UniSTS:70900

D5S1625E (e-PCR)
- UniSTS:151035

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in endocytosis	IEA Inferred from Electronic Annotation more info
involved_in establishment of localization in cell	IEA Inferred from Electronic Annotation more info
involved_in exocytosis	IEA Inferred from Electronic Annotation more info
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 clathrin-coated vesicle	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	TAS Traceable Author Statement more info
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
located_in specific granule membrane	TAS Traceable Author Statement more info
located_in synaptic vesicle membrane	IEA Inferred from Electronic Annotation more info
located_in trans-Golgi network	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 zymogen granule membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: secretory carrier-associated membrane protein 1

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)

NM_001290229.2 → NP_001277158.1 secretory carrier-associated membrane protein 1 isoform 3

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks an in-frame exon in the 5' coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.

Source sequence(s)

AK001417, AK304452, AL049223, AW590077, BC034048, CR542286

Consensus CDS

CCDS78025.1

UniProtKB/TrEMBL

A0A087WXB0, B4E2V7

Related

ENSP00000480865.1, ENST00000618166.4

Conserved Domains (1) summary

pfam04144
Location:91 → 266

SCAMP; SCAMP family
NM_004866.6 → NP_004857.4 secretory carrier-associated membrane protein 1 isoform 1

See identical proteins and their annotated locations for NP_004857.4

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).

Source sequence(s)

AK001417, AL049223, AW590077, BC034048, CR542286, DB213762

Consensus CDS

CCDS75264.1

UniProtKB/Swiss-Prot

O15126, O43587, Q6FG23, Q96BX1, Q96QK5

UniProtKB/TrEMBL

A8K2G0

Related

ENSP00000481022.1, ENST00000621999.5

Conserved Domains (1) summary

pfam04144
Location:117 → 292

SCAMP; SCAMP family

RNA

NR_110885.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (2) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AK001417, AL049223, AW590077, BC009787, BC034048

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

NC_000005.10 Reference GRCh38.p14 Primary Assembly

Range

78360617..78480739

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011543727.4 → XP_011542029.1 secretory carrier-associated membrane protein 1 isoform X1

See identical proteins and their annotated locations for XP_011542029.1

UniProtKB/TrEMBL

A8K2G0

Conserved Domains (2) summary

pfam04144
Location:117 → 258

SCAMP; SCAMP family

cl03075
Location:65 → 115

GrpE; nucleotide exchange factor GrpE

Alternate T2T-CHM13v2.0

Genomic

NC_060929.1 Alternate T2T-CHM13v2.0

Range

78842266..78962217

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054353828.1 → XP_054209803.1 secretory carrier-associated membrane protein 1 isoform X1

UniProtKB/TrEMBL

A8K2G0

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_052822.2: Suppressed sequence

Description

NM_052822.2: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.