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SCGN secretagogin, EF-hand calcium binding protein [ Homo sapiens (human) ]

Gene ID: 10590, updated on 5-Aug-2022

Summary

Official Symbol
SCGNprovided by HGNC
Official Full Name
secretagogin, EF-hand calcium binding proteinprovided by HGNC
Primary source
HGNC:HGNC:16941
See related
Ensembl:ENSG00000079689 MIM:609202; AllianceGenome:HGNC:16941
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
SEGN; CALBL; SECRET; setagin; DJ501N12.8
Summary
The encoded protein is a secreted calcium-binding protein which is found in the cytoplasm. It is related to calbindin D-28K and calretinin. This protein is thought to be involved in KCL-stimulated calcium flux and cell proliferation. [provided by RefSeq, Jul 2008]
Expression
Biased expression in stomach (RPKM 11.2), colon (RPKM 8.7) and 8 other tissues See more
Orthologs
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Genomic context

See SCGN in Genome Data Viewer
Location:
6p22.2
Exon count:
11
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (25652215..25701783)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (25518025..25567550)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (25652443..25702011)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene capping protein regulator and myosin 1 linker 1 Neighboring gene uncharacterized LOC124901281 Neighboring gene RNA, U6 small nuclear 987, pseudogene Neighboring gene small nucleolar RNA U13 Neighboring gene uncharacterized LOC124901284 Neighboring gene PRELID1 pseudogene 2 Neighboring gene solute carrier family 17 member 1 Neighboring gene H2A clustered histone 1 Neighboring gene H2B clustered histone 1

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
Meta-analysis of 28,141 individuals identifies common variants within five new loci that influence uric acid concentrations.
EBI GWAS Catalog
Variants in TF and HFE explain approximately 40% of genetic variation in serum-transferrin levels.
EBI GWAS Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables calcium ion binding NAS
Non-traceable Author Statement
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
 
involved_in regulation of cytosolic calcium ion concentration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of long-term synaptic potentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of presynaptic cytosolic calcium ion concentration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in cytoplasm NAS
Non-traceable Author Statement
more info
PubMed 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in dendrite IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
is_active_in neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in synapse IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in terminal bouton IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in transport vesicle membrane IEA
Inferred from Electronic Annotation
more info
 

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_006998.4NP_008929.2  secretagogin

    See identical proteins and their annotated locations for NP_008929.2

    Status: REVIEWED

    Source sequence(s)
    BC000336, BM511122, BQ477463, Y16752
    Consensus CDS
    CCDS4561.1
    UniProtKB/Swiss-Prot
    O76038, Q9UJF6
    Related
    ENSP00000367197.2, ENST00000377961.3
    Conserved Domains (1) summary
    cd16178
    Location:17273
    EFh_HEF_SCGN; EF-hand, calcium binding motif, found in secretagogin (SCGN)

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    25652215..25701783
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    25518025..25567550
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)