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SCG2 secretogranin II [ Homo sapiens (human) ]

Gene ID: 7857, updated on 13-May-2022

Summary

Official Symbol
SCG2provided by HGNC
Official Full Name
secretogranin IIprovided by HGNC
Primary source
HGNC:HGNC:10575
See related
Ensembl:ENSG00000171951 MIM:118930; AllianceGenome:HGNC:10575
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
SN; CHGC; EM66; SgII
Summary
The protein encoded by this gene is a member of the chromogranin/secretogranin family of neuroendocrine secretory proteins. Studies in rodents suggest that the full-length protein, secretogranin II, is involved in the packaging or sorting of peptide hormones and neuropeptides into secretory vesicles. The full-length protein is cleaved to produce the active peptide secretoneurin, which exerts chemotaxic effects on specific cell types, and EM66, whose function is unknown. [provided by RefSeq, Jul 2008]
Expression
Biased expression in adrenal (RPKM 212.1), brain (RPKM 97.1) and 4 other tissues See more
Orthologs
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Genomic context

See SCG2 in Genome Data Viewer
Location:
2q36.1
Exon count:
2
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (223596940..223602361, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (224080034..224085455, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (224461658..224467079, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124907987 Neighboring gene Sharpr-MPRA regulatory region 14563 Neighboring gene Sharpr-MPRA regulatory region 12775 Neighboring gene Sharpr-MPRA regulatory region 6301

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
Genome-wide pleiotropy of osteoporosis-related phenotypes: the Framingham Study.
EBI GWAS Catalog
Serum ferritin levels are associated with a distinct phenotype of chronic hepatitis C poorly responding to pegylated interferon-alpha and ribavirin therapy.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat Microarray analysis indicates HIV-1 Tat-induced upregulation of secretogranin II (SCG2) in primary human brain microvascular endothelial cells 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
enables chemoattractant activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables chemoattractant activity IDA
Inferred from Direct Assay
more info
PubMed 
enables cytokine activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables cytokine activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
located_in neuronal dense core vesicle IEA
Inferred from Electronic Annotation
more info
 
is_active_in secretory granule IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
secretogranin-2
Names
chromogranin-C
secretoneurin

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.

Genomic

  1. NG_027998.1 RefSeqGene

    Range
    5139..10560
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_003469.5NP_003460.2  secretogranin-2 precursor

    See identical proteins and their annotated locations for NP_003460.2

    Status: REVIEWED

    Source sequence(s)
    AK312452, BC022509, DA271642
    Consensus CDS
    CCDS2457.1
    UniProtKB/Swiss-Prot
    P13521
    Related
    ENSP00000304133.2, ENST00000305409.3
    Conserved Domains (1) summary
    pfam01271
    Location:27614
    Granin; Granin (chromogranin or secretogranin)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    223596940..223602361 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    224080034..224085455 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)