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SCRN3 secernin 3 [ Homo sapiens (human) ]

Gene ID: 79634, updated on 5-Mar-2024

Summary

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Official Symbol
SCRN3provided by HGNC
Official Full Name
secernin 3provided by HGNC
Primary source
HGNC:HGNC:30382
See related
Ensembl:ENSG00000144306 MIM:614967; AllianceGenome:HGNC:30382
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SES3
Summary
Predicted to enable cysteine-type exopeptidase activity and dipeptidase activity. Predicted to be involved in proteolysis. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 6.9), thyroid (RPKM 5.5) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
2q31.1
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (174395730..174430071)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (174884418..174918718)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (175260458..175294303)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724194 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12125 Neighboring gene VISTA enhancer hs953 Neighboring gene Sharpr-MPRA regulatory region 8106 Neighboring gene Sp9 transcription factor Neighboring gene corepressor interacting with RBPJ, CIR1 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:175256788-175256952 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16772 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:175260886-175261386 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:175274337-175274938 Neighboring gene G protein-coupled receptor 155 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:175351272-175351454 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12126 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16774 Neighboring gene GPR155 divergent transcript

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Purification and identification of secernin, a novel cytosolic protein that regulates exocytosis in mast cells. Way G, et al. Mol Biol Cell, 2002 Sep. PMID 12221138, Free PMC Article
  2. Antisense promoter of human L1 retrotransposon drives transcription of adjacent cellular genes. Speek M. Mol Cell Biol, 2001 Mar. PMID 11238933, Free PMC Article
  3. Comparative Protein Interaction Network Analysis Identifies Shared and Distinct Functions for the Human ROCO Proteins. Tomkins JE, et al. Proteomics, 2018 May. PMID 29513927, Free PMC Article
  4. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Hillier LW, et al. Nature, 2005 Apr 7. PMID 15815621
  5. Mammalian APE1 controls miRNA processing and its interactome is linked to cancer RNA metabolism. Antoniali G, et al. Nat Commun, 2017 Oct 6. PMID 28986522, Free PMC Article

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ23142, MGC149597

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables cysteine-type exopeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables dipeptidase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
secernin-3

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_001193528.2 → NP_001180457.1  secernin-3 isoform 2

    See identical proteins and their annotated locations for NP_001180457.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses a different splice site in the 5' coding region, which results in the use of an upstream start codon, compared to variant 1. The resulting protein (isoform 2) has a shorter and distinct N-terminus when it is compared to isoform 1.
    Source sequence(s)
    AA227619, AK295357, BC031821, CK301138, DA760451
    Consensus CDS
    CCDS54420.1
    UniProtKB/Swiss-Prot
    Q0VDG4
    Related
    ENSP00000387142.3, ENST00000409673.7
    Conserved Domains (1) summary
    cl00467
    Location:48 → 219
    Ntn_hydrolase; The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a ...

  2. NM_001412202.1 → NP_001399131.1  secernin-3 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC018470
    UniProtKB/Swiss-Prot
    B4DI11, C9JPC1, D3DPE0, Q0VDG4, Q7L1C5, Q9H5R5

  3. NM_001412203.1 → NP_001399132.1  secernin-3 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC018470
    UniProtKB/Swiss-Prot
    B4DI11, C9JPC1, D3DPE0, Q0VDG4, Q7L1C5, Q9H5R5

  4. NM_001412204.1 → NP_001399133.1  secernin-3 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC018470
    UniProtKB/Swiss-Prot
    B4DI11, C9JPC1, D3DPE0, Q0VDG4, Q7L1C5, Q9H5R5

  5. NM_001412205.1 → NP_001399134.1  secernin-3 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC018470
    UniProtKB/Swiss-Prot
    B4DI11, C9JPC1, D3DPE0, Q0VDG4, Q7L1C5, Q9H5R5

  6. NM_001412206.1 → NP_001399135.1  secernin-3 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC018470
    UniProtKB/Swiss-Prot
    B4DI11, C9JPC1, D3DPE0, Q0VDG4, Q7L1C5, Q9H5R5

  7. NM_001412207.1 → NP_001399136.1  secernin-3 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC018470
    UniProtKB/Swiss-Prot
    B4DI11, C9JPC1, D3DPE0, Q0VDG4, Q7L1C5, Q9H5R5

  8. NM_001412208.1 → NP_001399137.1  secernin-3 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC018470
    UniProtKB/Swiss-Prot
    B4DI11, C9JPC1, D3DPE0, Q0VDG4, Q7L1C5, Q9H5R5

  9. NM_001412209.1 → NP_001399138.1  secernin-3 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC018470

  10. NM_001412210.1 → NP_001399139.1  secernin-3 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC018470

  11. NM_001412212.1 → NP_001399141.1  secernin-3 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (12) uses the same exon combination as variant 1 but represents the allele encoded by the T2T-CHM13v2.0 genome assembly. The encoded isoform (5) has a frameshifted C-terminus compared to isoform 1.
    Source sequence(s)
    CP068276
    UniProtKB/TrEMBL
    Q0VDG5

  12. NM_024583.5 → NP_078859.2  secernin-3 isoform 1

    See identical proteins and their annotated locations for NP_078859.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) uses the same exon combination as variant 12 but represents the allele encoded by the GRCh38 reference genome. The encoded isoform (1) has a frameshifted C-terminus compared to isoform 5.
    Source sequence(s)
    AA227619, BC031821, BC119684, CK301138, DA760451
    Consensus CDS
    CCDS2258.1
    UniProtKB/Swiss-Prot
    B4DI11, C9JPC1, D3DPE0, Q0VDG4, Q7L1C5, Q9H5R5
    Related
    ENSP00000272732.6, ENST00000272732.11
    Conserved Domains (1) summary
    cl00467
    Location:5 → 226
    Ntn_hydrolase; The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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
    174395730..174430071
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    174884418..174918718
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q0VDG4.1 GenPept UniProtKB/Swiss-Prot:Q0VDG4

Gene LinkOut

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