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    SCG2 secretogranin II [ Homo sapiens (human) ]

    Gene ID: 7857, updated on 9-Dec-2024

    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See SCG2 in Genome Data Viewer
    Location:
    2q36.1
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (223596940..223602361, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (224080034..224085455, complement)
    RS_2024_09 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 LOC105373907 Neighboring gene uncharacterized LOC124907987 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr2:224413358-224414557 Neighboring gene Sharpr-MPRA regulatory region 14563 Neighboring gene Sharpr-MPRA regulatory region 12775 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr2:224482816-224483471 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr2:224561972-224563171 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr2:224563821-224565020 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr2:224590012-224591211 Neighboring gene MLX pseudogene 1 Neighboring gene Sharpr-MPRA regulatory region 2258 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17172 Neighboring gene adaptor related protein complex 1 subunit sigma 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17173 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17174 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12376

    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

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables chemoattractant activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables chemoattractant activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables cytokine activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    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
     
    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
     

    General protein information

    Preferred Names
    secretogranin-2
    Names
    chromogranin-C
    secretoneurin

    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.

    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
      B2R662, P13521, Q53T11, Q8TBH3
      Related
      ENSP00000304133.2, ENST00000305409.3
      Conserved Domains (1) summary
      pfam01271
      Location:27614
      Granin; Granin (chromogranin or secretogranin)

    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_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)