Snd1 MGI Mouse Gene Detail - MGI:1929266 - staphylococcal nuclease and tudor domain containing 1

Symbol

Snd1
Name

staphylococcal nuclease and tudor domain containing 1
Synonyms

p100 co-activator, Tudor-SN

Feature Type

protein coding gene
IDs

MGI:1929266
NCBI Gene: 56463
Alliance

gene page
Transcription Start Sites

12 TSS

Sequence Map

Chr6:28480332-28935161 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 6, 11.99 cM
Mapping Data

2 experiments

SNPs within 2kb

2927 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1929266	protein coding gene	Chr6:28475138-28935161 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0030511	protein coding gene	Chr6:26209403-26681163 (+)
A/J	MGP_AJ_G0030484	protein coding gene	Chr6:25104012-25560142 (+)
AKR/J	MGP_AKRJ_G0030411	protein coding gene	Chr6:25936493-26400403 (+)
BALB/cJ	MGP_BALBcJ_G0030494	protein coding gene	Chr6:25270076-25720031 (+)
C3H/HeJ	MGP_C3HHeJ_G0030207	protein coding gene	Chr6:25923257-26399925 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0030948	protein coding gene	Chr6:27010253-27487542 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0028159	protein coding gene	Chr6:23332731-23776575 (+)
CAST/EiJ	MGP_CASTEiJ_G0029609	protein coding gene	Chr6:25727338-26186181 (+)
CBA/J	MGP_CBAJ_G0030185	protein coding gene	Chr6:27976783-28460037 (+)
DBA/2J	MGP_DBA2J_G0030329	protein coding gene	Chr6:25057838-25507694 (+)
FVB/NJ	MGP_FVBNJ_G0030283	protein coding gene	Chr6:24809529-25263163 (+)
LP/J	MGP_LPJ_G0030416	protein coding gene	Chr6:26353479-26818997 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0030319	protein coding gene	Chr6:30533756-31019768 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0030978	protein coding gene	Chr6:25811903-26263758 (+)
PWK/PhJ	MGP_PWKPhJ_G0029323	protein coding gene	Chr6:24586701-25033804 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0029159	protein coding gene	Chr6:25503118-25985320 (+)
WSB/EiJ	MGP_WSBEiJ_G0029685	protein coding gene	Chr6:25779745-26241793 (+)

Human Ortholog

SND1, staphylococcal nuclease and tudor domain containing 1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SND1, staphylococcal nuclease and tudor domain containing 1
Synonyms

p100, TDRD11, TSN, Tudor-SN
Links

HGNC:30646

NCBI Gene ID: 27044

neXtProt AC: NX_Q7KZF4

UniProt: Q7KZF4
Chr Location

7q32.1; chr7:127652194-128092609 (+) GRCh38

MGI Vertebrate Homology

Snd1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: SND1
Protein SuperFamily

RISC-Tudor-SN
Gene Tree

Snd1

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Phenotype Summary

11 phenotypes from 2 alleles in 2 genetic backgrounds
12 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

72
Endonuclease-mediated

3
Gene trapped

67
Targeted

2
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

95 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele exhibit normal splenic T and B cell ratios and TH1 activity.

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All GO Annotations

26
GO References

10

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

764
Tissues

50
cDNA Data

13
Literature Summary

4

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase snd1

ZFIN snd1

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All Sequences

85
RefSeq

8
UniProt

7
CCDS

CCDS19953.1

Ensembl

ENSMUSG00000001424 (Evidence)
NCBI Gene

56463

			Length	Strain/Species	Flank
genomic	56463	NCBI Gene Model \| MGI Sequence Detail	454830	C57BL/6J	± kb
transcript	NM_019776	RefSeq \| MGI Sequence Detail	3482	C57BL/6
polypeptide	Q78PY7	UniProt \| EBI \| MGI Sequence Detail	910	Not Applicable

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UniProt

7 Sequences
Protein Ontology

PR:000015326 staphylococcal nuclease domain-containing protein 1

(term hierarchy)
EC

3.1.31.1
InterPro Domains

IPR016685 RNA-induced silencing complex, nuclease component Tudor-SN

IPR035437 SNase-like, OB-fold superfamily

IPR016071 Staphylococcal nuclease (SNase-like), OB-fold

IPR002071 Thermonuclease active site

IPR002999 Tudor domain

IPR047386 Tudor domain-containing protein 11, Tudor domain

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All nucleic 17

cDNA 14

Primer pair 2

Other 1

Microarray probesets 3

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MGI:2141543

Summaries

All 48

Developmental Gene Expression 4

Gene Ontology 10

Phenotypes 12
Earliest

J:80000 The FANTOM Consortium and The RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 2002;420:563-573
Latest

J:342599 Liao SY, et al., SND1 binds to ERG and promotes tumor growth in genetic mouse models of prostate cancer. Nat Commun. 2023 Nov 16;14(1):7435

TSS for Snd1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr55201	Chr6:28480336-28480369 (+)	21 bp
Tssr55202	Chr6:28480385-28480412 (+)	67 bp
Tssr1796	Chr6:28522225-28522228 (+)	41,895 bp
Tssr55203	Chr6:28556382-28556384 (+)	76,051 bp
Tssr55204	Chr6:28587423-28587434 (+)	107,097 bp
Tssr55205	Chr6:28624489-28624495 (+)	144,160 bp
Tssr55206	Chr6:28645397-28645408 (+)	165,071 bp
Tssr55207	Chr6:28754727-28754749 (+)	274,406 bp
Tssr55208	Chr6:28773293-28773296 (+)	292,963 bp
Tssr55209	Chr6:28867853-28867860 (+)	387,525 bp
Tssr55210	Chr6:28888473-28888504 (+)	408,157 bp
Tssr55211	Chr6:28888573-28888576 (+)	408,243 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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