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Snd1 staphylococcal nuclease and tudor domain containing 1 [ Mus musculus (house mouse) ]

Gene ID: 56463, updated on 21-Apr-2024

Summary

Official Symbol
Snd1provided by MGI
Official Full Name
staphylococcal nuclease and tudor domain containing 1provided by MGI
Primary source
MGI:MGI:1929266
See related
Ensembl:ENSMUSG00000001424 AllianceGenome:MGI:1929266
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Tudor-SN
Summary
Predicted to enable RISC complex binding activity; RNA binding activity; and endoribonuclease activity. Predicted to be involved in mRNA catabolic process; miRNA catabolic process; and regulation of cell cycle process. Located in dense body and nucleus. Is expressed in several structures, including central nervous system; early conceptus; limb mesenchyme; reproductive system; and sensory organ. Orthologous to human SND1 (staphylococcal nuclease and tudor domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in adrenal adult (RPKM 40.7), ovary adult (RPKM 37.4) and 28 other tissues See more
Orthologs
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Genomic context

Location:
6 A3.3; 6 11.99 cM
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (28480332..28935161)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (28480337..28935162)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene Pax4 5' regulatory region Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:28430124-28430311 Neighboring gene fascin actin-bundling protein 3 Neighboring gene paired box 4 Neighboring gene STARR-seq mESC enhancer starr_15418 Neighboring gene leucine rich repeat containing 4 Neighboring gene STARR-seq mESC enhancer starr_15424 Neighboring gene STARR-seq mESC enhancer starr_15426 Neighboring gene predicted gene, 53277 Neighboring gene uncharacterized LOC118567373 Neighboring gene predicted gene, 38779 Neighboring gene predicted gene, 40357 Neighboring gene microRNA 129-1

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2)  1 citation
  • Endonuclease-mediated (3) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RISC complex binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA endonuclease activity ISO
Inferred from Sequence Orthology
more info
 
enables endonuclease activity ISO
Inferred from Sequence Orthology
more info
 
enables endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables nuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in mRNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in miRNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cell cycle process ISO
Inferred from Sequence Orthology
more info
 
involved_in regulatory ncRNA-mediated gene silencing IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of RISC complex IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in dense body IDA
Inferred from Direct Assay
more info
PubMed 
located_in mitochondrion HDA PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
staphylococcal nuclease domain-containing protein 1
Names
100 kDa coactivator
p100 co-activator
NP_062750.2
XP_006505205.1
XP_030111373.1
XP_030111374.1

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_019776.2NP_062750.2  staphylococcal nuclease domain-containing protein 1

    See identical proteins and their annotated locations for NP_062750.2

    Status: VALIDATED

    Source sequence(s)
    AB021491, AC072048, AK034914, BB613775, BM944959
    Consensus CDS
    CCDS19953.1
    UniProtKB/Swiss-Prot
    Q3TT46, Q78PY7, Q922L5, Q9R0S1
    UniProtKB/TrEMBL
    Q3TW51, Q3UZI3
    Related
    ENSMUSP00000001460.7, ENSMUST00000001460.14
    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: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    28480332..28935161
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006505142.4XP_006505205.1  staphylococcal nuclease domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006505205.1

    UniProtKB/TrEMBL
    Q3TJ56
    Related
    ENSMUSP00000128737.2, ENSMUST00000167201.2
    Conserved Domains (3) summary
    smart00318
    Location:21166
    SNc; Staphylococcal nuclease homologues
    cd00175
    Location:350496
    SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
    cl29560
    Location:525593
    SNc; Staphylococcal nuclease homologues
  2. XM_030255513.1XP_030111373.1  staphylococcal nuclease domain-containing protein 1 isoform X2

    Conserved Domains (3) summary
    smart00318
    Location:127262
    SNc; Staphylococcal nuclease homologues
    pfam00567
    Location:286401
    TUDOR; Tudor domain
    cl00140
    Location:198
    SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
  3. XM_030255514.1XP_030111374.1  staphylococcal nuclease domain-containing protein 1 isoform X3

    Conserved Domains (3) summary
    smart00318
    Location:98233
    SNc; Staphylococcal nuclease homologues
    pfam00567
    Location:257372
    TUDOR; Tudor domain
    cl00140
    Location:1969
    SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.