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SND1 staphylococcal nuclease and tudor domain containing 1 [ Homo sapiens (human) ]

Gene ID: 27044, updated on 23-Aug-2020

Summary

Official Symbol
SND1provided by HGNC
Official Full Name
staphylococcal nuclease and tudor domain containing 1provided by HGNC
Primary source
HGNC:HGNC:30646
See related
Ensembl:ENSG00000197157 MIM:602181
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
p100; TDRD11; Tudor-SN
Summary
This gene encodes a transcriptional co-activator that interacts with the acidic domain of Epstein-Barr virus nuclear antigen 2 (EBNA 2), a transcriptional activator that is required for B-lymphocyte transformation. Other transcription factors that interact with this protein are signal transducers and activators of transcription, STATs. This protein is also thought to be essential for normal cell growth. A similar protein in mammals and other organisms is a component of the RNA-induced silencing complex (RISC). [provided by RefSeq, Jul 2016]
Expression
Ubiquitous expression in placenta (RPKM 45.9), thyroid (RPKM 41.6) and 25 other tissues See more
Orthologs

Genomic context

See SND1 in Genome Data Viewer
Location:
7q32.1
Exon count:
25
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (127652145..128092593)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (127292043..127732659)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene PAX4 5' regulatory region Neighboring gene fascin actin-bundling protein 3 Neighboring gene paired box 4 Neighboring gene CD2 cytoplasmic tail binding protein 2 pseudogene Neighboring gene uncharacterized LOC105375492 Neighboring gene SND1 intronic transcript 1 Neighboring gene leucine rich repeat containing 4 Neighboring gene uncharacterized LOC105375493 Neighboring gene microRNA 593 Neighboring gene microRNA 129-1

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

Associated conditions

Description Tests
Genome-wide association study in a Chinese population identifies a susceptibility locus for type 2 diabetes at 7q32 near PAX4.
GeneReviews: Not available

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag Interaction of HIV-1 Gag with staphylococcal nuclease and tudor domain containing 1 (SND1) is identified in a series of six affinity purification/mass spectrometry screens PubMed
retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human staphylococcal nuclease and tudor domain containing 1 (SND1) at amino acid residues 670-671 by the HIV-1 protease PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RISC complex binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
cadherin binding HDA PubMed 
endonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
endoribonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
nuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription coregulator activity TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
RNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA phosphodiester bond hydrolysis, endonucleolytic IEA
Inferred from Electronic Annotation
more info
 
gene silencing by RNA IEA
Inferred from Electronic Annotation
more info
 
miRNA catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
osteoblast differentiation HDA PubMed 
regulation of cell cycle process IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of nucleic acid-templated transcription IEA
Inferred from Electronic Annotation
more info
 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
RISC complex IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
dense body IEA
Inferred from Electronic Annotation
more info
 
extracellular exosome HDA PubMed 
melanosome IEA
Inferred from Electronic Annotation
more info
 
membrane HDA PubMed 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
staphylococcal nuclease domain-containing protein 1
Names
EBNA2 coactivator p100
testis tissue sperm-binding protein Li 82P
tudor domain-containing protein 11
NP_055205.2
XP_016867476.1

NCBI Reference Sequences (RefSeq)

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_051199.1 RefSeqGene

    Range
    5206..445605
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_014390.4NP_055205.2  staphylococcal nuclease domain-containing protein 1

    See identical proteins and their annotated locations for NP_055205.2

    Status: REVIEWED

    Source sequence(s)
    BC017180, BE799345, BQ217773
    Consensus CDS
    CCDS34747.1
    UniProtKB/Swiss-Prot
    Q7KZF4
    UniProtKB/TrEMBL
    A0A140VK49
    Related
    ENSP00000346762.3, ENST00000354725.8
    Conserved Domains (5) summary
    smart00333
    Location:728784
    TUDOR; Tudor domain
    smart00318
    Location:21166
    SNc; Staphylococcal nuclease homologues
    cd00175
    Location:26166
    SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
    pfam00567
    Location:677799
    TUDOR; Tudor domain
    cl00140
    Location:844895
    SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    127652145..128092593
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017011987.2XP_016867476.1  staphylococcal nuclease domain-containing protein 1 isoform X1

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