Snw1 (SNW domain containing 1) - Rat Genome Database

Name: Snw1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) (beta) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Snw1 (SNW domain containing 1) Rattus norvegicus

Analyze

Symbol:

Snw1

Name:

SNW domain containing 1

RGD ID:

1561926

Description:

Predicted to enable several functions, including Notch binding activity; nuclear receptor binding activity; and transcription coactivator activity. Involved in Schwann cell proliferation. Located in chromatin and cytoplasm. Part of SMAD protein complex. Used to study sciatic neuropathy. Human ortholog(s) of this gene implicated in breast cancer and pancreatic cancer. Orthologous to human SNW1 (SNW domain containing 1); PARTICIPATES IN spliceosome pathway; Notch signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; bisphenol A; cobalt dichloride.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC500695; RGD1561926; similar to Nuclear protein SkiP (Ski-interacting protein) ; similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62); SNW domain-containing protein 1

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SNW1 (SNW domain containing 1)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Snw1 (SNW domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Snw1 (SNW domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SNW1 (SNW domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SNW1 (SNW domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Snw1 (SNW domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SNW1 (SNW domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SNW1 (SNW domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Snw1 (SNW domain containing 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SNW1 (SNW domain containing 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Mus musculus (house mouse):	Snw1 (SNW domain containing 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	snw1 (SNW domain containing 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Bx42	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	PRP45	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	skp-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	6	107,095,450 - 107,119,536 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	107,095,457 - 107,119,536 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	107,264,352 - 107,288,363 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	6	107,563,169 - 107,587,180 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	6	106,932,867 - 106,956,881 (-)	NCBI	Rnor_WKY
Rnor_6.0	6	111,483,698 - 111,507,782 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	111,483,703 - 111,507,782 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	120,764,412 - 120,788,496 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	111,688,742 - 111,712,826 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	6	104,915,183 - 104,939,184 (-)	NCBI		Celera
Cytogenetic Map	6	q31	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Brain Injuries (IEP)

breast cancer (ISO)

breast carcinoma (ISO)

hepatocellular carcinoma (ISO)

Optic Nerve Injuries (IEP)

pancreatic cancer (ISO)

sciatic neuropathy (IDA)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

aflatoxin B1 (ISO)

Aroclor 1254 (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

caffeine (ISO)

casticin (ISO)

choline (ISO)

cobalt dichloride (EXP)

Cuprizon (EXP)

cycloheximide (ISO)

cyclosporin A (ISO)

deoxynivalenol (ISO)

dibutyl phthalate (ISO)

dicrotophos (ISO)

doxorubicin (ISO)

enzalutamide (ISO)

enzyme inhibitor (ISO)

folic acid (ISO)

glyphosate (ISO)

indole-3-methanol (EXP)

ivermectin (ISO)

L-methionine (ISO)

lead(0) (ISO)

lead(2+) (ISO)

methoxychlor (ISO)

phenobarbital (ISO)

resveratrol (ISO)

serpentine asbestos (ISO)

sunitinib (ISO)

tetrahydropalmatine (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to retinoic acid (ISO)

intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (ISO)

mRNA splicing, via spliceosome (ISO)

negative regulation of DNA-templated transcription (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

positive regulation by host of viral transcription (ISO)

positive regulation of histone H3-K4 methylation (ISO)

positive regulation of mRNA splicing, via spliceosome (ISO)

positive regulation of neurogenesis (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

positive regulation of transforming growth factor beta receptor signaling pathway (ISO)

positive regulation of vitamin D receptor signaling pathway (ISO)

regulation of retinoic acid receptor signaling pathway (ISO)

regulation of vitamin D receptor signaling pathway (ISO)

retinoic acid receptor signaling pathway (ISO)

Schwann cell proliferation (IEP)

skeletal muscle cell differentiation (ISO)

Cellular Component

catalytic step 2 spliceosome (ISO)

chromatin (IDA)

cyclin/CDK positive transcription elongation factor complex (ISO)

cytoplasm (IDA)

nuclear body (ISO)

nuclear matrix (ISO)

nuclear speck (ISO)

nucleoplasm (ISO)

nucleus (ISO)

SMAD protein complex (IDA)

spliceosomal complex (ISO)

U2-type catalytic step 2 spliceosome (ISO)

Molecular Function

enzyme binding (ISO)

Notch binding (ISO)

nuclear androgen receptor binding (ISO)

nuclear receptor binding (ISO)

nuclear retinoic acid receptor binding (ISO)

nuclear vitamin D receptor binding (ISO)

protein binding (IPI,ISO)

SMAD binding (ISO)

transcription coactivator activity (ISO)

transcription corepressor activity (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

Notch signaling pathway (IEA)

spliceosome pathway (IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Splicing and beyond: the many faces of the Prp19 complex.	Chanarat S and Strasser K, Biochim Biophys Acta. 2013 Oct;1833(10):2126-34. doi: 10.1016/j.bbamcr.2013.05.023. Epub 2013 Jun 3.
2.	Up-regulation of ski-interacting protein in rat brain cortex after traumatic brain injury.	Chen J, etal., J Mol Histol. 2013 Feb;44(1):1-10. doi: 10.1007/s10735-012-9444-9. Epub 2012 Sep 11.
3.	Association of mitotic regulation pathway polymorphisms with pancreatic cancer risk and outcome.	Couch FJ, etal., Cancer Epidemiol Biomarkers Prev. 2010 Jan;19(1):251-7. doi: 10.1158/1055-9965.EPI-09-0629.
4.	High SKIP expression is correlated with poor prognosis and cell proliferation of hepatocellular carcinoma.	Liu G, etal., Med Oncol. 2013;30(3):537. doi: 10.1007/s12032-013-0537-4. Epub 2013 May 22.
5.	Expression and prognostic role of SKIP in human breast carcinoma.	Liu X, etal., J Mol Histol. 2014 Apr;45(2):169-80. doi: 10.1007/s10735-013-9546-z. Epub 2013 Oct 23.
6.	Variation in genes required for normal mitosis and risk of breast cancer.	Olson JE, etal., Breast Cancer Res Treat. 2010 Jan;119(2):423-30. Epub 2009 Apr 18.
7.	Evolution of Na,K-ATPase beta m-subunit into a coregulator of transcription in placental mammals.	Pestov NB, etal., Proc Natl Acad Sci U S A. 2007 Jul 3;104(27):11215-20. Epub 2007 Jun 25.
8.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
9.	GOA pipeline	RGD automated data pipeline
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
11.	Comprehensive gene review and curation	RGD comprehensive gene curation
12.	Spatiotemporal expression of SKIP after rat sciatic nerve crush.	Wang Y, etal., Neurochem Res. 2013 Apr;38(4):857-65. doi: 10.1007/s11064-013-0990-7. Epub 2013 Feb 7.
13.	Up-regulation of SKIP relates to retinal ganglion cells apoptosis after optic nerve crush in vivo.	Wu Y, etal., J Mol Histol. 2014 Dec;45(6):715-21. doi: 10.1007/s10735-014-9589-9. Epub 2014 Jul 30.

Additional References at PubMed

PMID:9569025	PMID:9632709	PMID:10713164	PMID:11278756	PMID:11514567	PMID:11991638	PMID:12529369	PMID:12840015	PMID:14985122	PMID:15194481	PMID:15878163	PMID:15905409
PMID:19818711	PMID:19934264	PMID:20007319	PMID:21460037	PMID:22147266	PMID:22681889	PMID:23566155	PMID:28076346	PMID:31505169

Genomics

Comparative Map Data

Snw1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	6	107,095,450 - 107,119,536 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	107,095,457 - 107,119,536 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	107,264,352 - 107,288,363 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	6	107,563,169 - 107,587,180 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	6	106,932,867 - 106,956,881 (-)	NCBI	Rnor_WKY
Rnor_6.0	6	111,483,698 - 111,507,782 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	111,483,703 - 111,507,782 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	120,764,412 - 120,788,496 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	111,688,742 - 111,712,826 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	6	104,915,183 - 104,939,184 (-)	NCBI		Celera
Cytogenetic Map	6	q31	NCBI

SNW1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	77,717,599 - 77,761,156 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	14	77,717,599 - 77,761,207 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	14	78,183,942 - 78,227,499 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	77,253,695 - 77,297,250 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	14	77,253,696 - 77,297,250	NCBI
Celera	14	58,222,440 - 58,266,009 (-)	NCBI		Celera
Cytogenetic Map	14	q24.3	NCBI
HuRef	14	58,349,919 - 58,393,992 (-)	NCBI		HuRef
CHM1_1	14	78,123,415 - 78,166,965 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	14	71,926,934 - 71,970,504 (-)	NCBI		T2T-CHM13v2.0

Snw1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	87,496,680 - 87,519,069 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	87,495,845 - 87,519,044 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	87,449,910 - 87,472,299 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	87,449,075 - 87,472,274 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	88,790,860 - 88,813,249 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	88,339,401 - 88,349,540 (-)	NCBI		MGSCv36	mm8
Celera	12	88,914,532 - 88,936,919 (-)	NCBI		Celera
Cytogenetic Map	12	D2	NCBI

Snw1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955438	1,561,568 - 1,601,492 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955438	1,561,562 - 1,601,492 (-)	NCBI	ChiLan1.0	ChiLan1.0

SNW1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	14	77,472,381 - 77,517,314 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	77,472,387 - 77,517,315 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	14	58,271,830 - 58,315,773 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

SNW1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	50,478,924 - 50,512,360 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	50,479,338 - 50,512,243 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	50,166,344 - 50,199,802 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	50,713,229 - 50,746,681 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	50,713,236 - 50,746,564 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	50,375,212 - 50,408,764 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	50,398,347 - 50,432,000 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	50,797,025 - 50,830,653 (-)	NCBI		UU_Cfam_GSD_1.0

Snw1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024408640	25,537,625 - 25,574,412 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936488	6,494,562 - 6,531,600 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936488	6,494,556 - 6,531,297 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SNW1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	100,718,036 - 100,749,356 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	100,718,298 - 100,749,414 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

SNW1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	24	54,976,597 - 55,020,051 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	24	54,977,083 - 55,019,988 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666053	43,163,503 - 43,207,653 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Snw1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624734	24,161,662 - 24,191,937 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624734	24,161,974 - 24,191,943 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Snw1
136 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	79
Count of miRNA genes:	65
Interacting mature miRNAs:	70
Transcripts:	ENSRNOT00000057807
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
4145119	Mcs25	Mammary carcinoma susceptibility QTL 25		0.0001	mammary gland integrity trait (VT:0010552)	ratio of deaths to total study population during a period of time (CMO:0001023)	6	10894415	110548006	Rat
1576309	Emca7	Estrogen-induced mammary cancer QTL 7	4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	15107216	107351382	Rat
731173	Uae22	Urinary albumin excretion QTL 22	10.1		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	65531555	140994061	Rat
2290393	Uae37	Urinary albumin excretion QTL 37		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	65531555	140994061	Rat
1641904	Alcrsp4	Alcohol response QTL 4			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	6	67262953	112262953	Rat
1300075	Glom7	Glomerulus QTL 7	5.6	0.0000002	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	6	71201409	116201409	Rat
1331789	Rf37	Renal function QTL 37	3.224		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	6	72202632	115200186	Rat
70196	BpQTLcluster7	Blood pressure QTL cluster 7	6.82		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	6	72202632	117202632	Rat
724536	Uae7	Urinary albumin excretion QTL 7	3.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	6	72202632	130729475	Rat
1331799	Bp211	Blood pressure QTL 211	3.66407		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	72202632	130919985	Rat
1581550	Pur8	Proteinuria QTL 8			urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	6	72227641	130729205	Rat
1581563	Uae33	Urinary albumin excretion QTL 33			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	72227641	130729205	Rat
724524	Uae2	Urinary albumin excretion QTL 2	2.7	0.0005	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	73463459	109394713	Rat
737827	Hcar11	Hepatocarcinoma resistance QTL 11	4.4		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	6	82523650	110548006	Rat
738034	Anxrr5	Anxiety related response QTL 5	5.9		exploratory behavior trait (VT:0010471)	percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)	6	84130881	129130881	Rat
10054138	Gmadr3	Adrenal mass QTL 3	3.68	0.00045	adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	6	85140138	130140138	Rat
10054123	Srcrt6	Stress Responsive Cort QTL 6	2.5	0.0043	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	6	85140138	130140138	Rat
724513	Uae14	Urinary albumin excretion QTL 14	6.5		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	85311061	133478515	Rat
1300076	Glom8	Glomerulus QTL 8	7	0.000000009	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)	6	86894788	131894788	Rat
2303624	Vencon5	Ventilatory control QTL 5	4.45		respiration trait (VT:0001943)	minute ventilation (CMO:0000132)	6	88047916	133047916	Rat
1331725	Bp212	Blood pressure QTL 212	3.52475		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	93701310	128713626	Rat
61414	Pia3	Pristane induced arthritis QTL 3	4.5		joint integrity trait (VT:0010548)	post-insult time to onset of experimental arthritis (CMO:0001450)	6	94968928	137848904	Rat
12801411	Schws8	Schwannoma susceptibility QTL 8			nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	94968928	139968928	Rat
8552796	Vie3	Viral induced encephalitis QTL 3	2.6		brain integrity trait (VT:0010579)	encephalitis incidence/prevalence measurement (CMO:0002361)	6	96833997	140994061	Rat
1358355	Srcrt4	Stress Responsive Cort QTL 4	6.39		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	6	100364669	140994061	Rat
2313399	Anxrr28	Anxiety related response QTL 28			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	6	100671796	132340886	Rat
1331797	Bp213	Blood pressure QTL 213	3.291		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	104085867	128713626	Rat
71111	Iddm8	Insulin dependent diabetes mellitus QTL 8	1.9	0.002	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	6	105156861	140994061	Rat
4145118	Mcs26	Mammary carcinoma susceptibility QTL 26		0.0001	mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	6	106752656	132339866	Rat

Markers in Region

RH135332

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	107,095,527 - 107,095,720 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	111,483,776 - 111,483,968	NCBI	Rnor6.0
Rnor_5.0	6	120,764,490 - 120,764,682	UniSTS	Rnor5.0
RGSC_v3.4	6	111,688,820 - 111,689,012	UniSTS	RGSC3.4
Celera	6	104,915,261 - 104,915,453	UniSTS
RH 3.4 Map	6	747.9	UniSTS
Cytogenetic Map	6	q31	UniSTS

RH138835

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	107,118,832 - 107,118,953 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	111,507,079 - 111,507,199	NCBI	Rnor6.0
Rnor_5.0	6	120,787,793 - 120,787,913	UniSTS	Rnor5.0
RGSC_v3.4	6	111,712,123 - 111,712,243	UniSTS	RGSC3.4
Celera	6	104,938,481 - 104,938,601	UniSTS
RH 3.4 Map	6	748.5	UniSTS
Cytogenetic Map	6	q31	UniSTS

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	35	56	41	19	41	1	3	74	35	41	11	1
Low		8	1				7	8					7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001109279	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473982	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215071	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000166	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000057807 ⟹ ENSRNOP00000054619

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	107,095,457 - 107,119,536 (-)	Ensembl
Rnor_6.0 Ensembl	6	111,483,703 - 111,507,782 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000109007 ⟹ ENSRNOP00000079929

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	107,095,834 - 107,116,501 (-)	Ensembl

RefSeq Acc Id:

NM_001109279 ⟹ NP_001102749

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	6	107,095,450 - 107,119,536 (-)	NCBI
Rnor_6.0	6	111,483,698 - 111,507,782 (-)	NCBI
Rnor_5.0	6	120,764,412 - 120,788,496 (-)	NCBI
RGSC_v3.4	6	111,688,742 - 111,712,826 (-)	RGD
Celera	6	104,915,183 - 104,939,184 (-)	RGD

Sequence:

show sequence

TTCCCGGGCAAGAATAGCCCCGCGACGCTGTGGCCTGCGCAGGAAGAAGCGGAAGAAGATGGCG
CTCACCAGCTTTTTACCTGCGCCTACCCAGCTATCTCAGGACCAACTTGAAGCTGAAGAAAGGG
CAAGATCTCAGAGATCACGACAGACCTCCCTGGTCTCCTCTCGAAGGGAGCCTCCCCCATACGG
ATACAGGAAAGGCTGGATTCCAAGACTCTTAGAGGATTTTGGAGATGGAGGCGCTTTCCCAGAA
ATCCATGTGGCCCAGTATCCTCTGGATATGGGGCGAAAGAAAAAAATGTCGAATGCACTGGCCA
TTCAGGTGGATCCTGAAGGGAAAATTAAATATGATGCAATTGCTCGACAGGGACAGTCCAAAGA
CAAGGTCATTTACAGCAAATACACGGACCTGGTTCCAAAGGAGGTTATGAATGCAGATGACCCA
GACCTGCAGAGGCCCGATGAGGAAGCAATTAAAGAGATAACAGAAAAGACAAGAGTTGCCTTGG
AGAAGTCTGTGTCTCAGAAGGTTGCTGCGGCCATGCCAGTTCGTGCAGCTGACAAGCTGGCTCC
TGCTCAGTATATCCGTTACACACCATCTCAGCAAGGAGTAGCATTCAATTCTGGAGCTAAACAG
AGGGTTATTCGGATGGTAGAAATGCAGAAAGATCCAATGGAGCCTCCAAGATTTAAGATTAATA
AGAAAATTCCCCGGGGACCACCATCTCCTCCTGCACCTGTAATGCACTCTCCTAGTCGGAAGAT
GACTGTAAAGGAGCAGCAGGAGTGGAAGATCCCTCCTTGTATTTCCAACTGGAAGAACGCTAAG
GGGTATACGATTCCACTAGATAAACGGCTGGCTGCTGATGGAAGAGGACTTCAGACTGTCCACA
TCAATGAAAATTTTGCCAAACTGGCTGAAGCCCTATACATTGCAGATCGGAAGGCTCGAGAAGC
GGTGGAAATGCGAGCCCAAGTGGAGAGAAAGATGGCTCAGAAAGAAAAGGAGAAGCATGAGGAG
AAACTCAGAGAAATGGCCCAGAAAGCCAGAGAAAGGAGAGCTGGGATCAAAACCCATGTGGAAA
AAGAGGATGGAGAGGCCCGAGAAAGAGATGAAATCCGTCATGACAGGCGAAAAGAGAGGCAGCA
TGACCGGAACCTTTCCAGAGCAGCTCCTGATAAGAGGTCCAAACTACAGAGAAATGAAAATCGA
GATATCAGTGAAGTCATTGCTCTTGGTGTGCCCAATCCTCGAACTTCCAATGAAGTCCAGTATG
ACCAAAGGCTCTTCAACCAGTCCAAGGGTATGGACAGTGGATTTGCAGGTGGAGAAGATGAAAT
TTACAATGTTTATGATCAAGCCTGGAGAGGTGGCAAAGATATGGCTCAGAGTATCTATAGGCCG
AGTAAAAATCTGGACAAGGACATGTATGGCGATGACCTCGAAACCAGGATAAAGACCAACAGAT
TTGTTCCTGATAAAGAGTTTTCAGGTTCAGATGGTAGAAAGAGAGGCCGAGAAGGACCAGTTCA
GTTTGAGGAAGATCCTTTTGGTTTGGACAAATTTTTGGAAGAAGCAAAACAGCATGGTGGGTCT
AAAAGACCTTCAGATAGCAGTCGCCCCAAGGAACATGAACATGAAGGCAAGAAGCGAAGGAAGG
AGTAGATGGGCCTCTTGAAATTAAATCTGACGTATACAGCAGAGGACTGCCTGGTCTGGCCAGA
GTGAGAGAAAATGGACCTAACCCTCAAGAGACTTGAGACCACAAAGAATGGGGAAGCCTGGGGG
GTGGGGGGGTGGGGTGGGGCATCCTCTTGGAGACAGGGGAAGAGGAATTTTTGGAGAGATGATG
GGGAGGGGGATAACAACTGGACTGTATTTAAAAAAAAAATTAAAAAAAAAAACAAACCAAATCT
GGGTGATAGATCCCAACACTCCTTCCATCCAGGAGATAGAGGCAATGCATATTCTATTTCGCAG
TAGTTTTTATAAAGAATGGTCTGTGTTTGTGCCTCTCCAATCTTGCAGCACTTATAAAAAATAC
TGCCCCTGACAAAATTGAGGCTACTTCCTTGCTAATCCAGGGGTAAAATTTTCTGTAAGAACTT
TATGAATTACCCCAAATGGTTAGTAGGTGGATGCTCATACACTCGAACTGTGCTGGCAGATGCA
TTTGCCCTGTTGGACTCTTCTACTGTGCAGTGGGGAAACCAAGTTCTTGCTTAGTGCAAACTAG
TTTCAAAAAAAAAAAAAAAAACACATTTAGAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001102749	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL81657	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001102749 ⟸ NM_001109279

- UniProtKB:

D4A8G7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MALTSFLPAPTQLSQDQLEAEERARSQRSRQTSLVSSRREPPPYGYRKGWIPRLLEDFGDGGAF
PEIHVAQYPLDMGRKKKMSNALAIQVDPEGKIKYDAIARQGQSKDKVIYSKYTDLVPKEVMNAD
DPDLQRPDEEAIKEITEKTRVALEKSVSQKVAAAMPVRAADKLAPAQYIRYTPSQQGVAFNSGA
KQRVIRMVEMQKDPMEPPRFKINKKIPRGPPSPPAPVMHSPSRKMTVKEQQEWKIPPCISNWKN
AKGYTIPLDKRLAADGRGLQTVHINENFAKLAEALYIADRKAREAVEMRAQVERKMAQKEKEKH
EEKLREMAQKARERRAGIKTHVEKEDGEARERDEIRHDRRKERQHDRNLSRAAPDKRSKLQRNE
NRDISEVIALGVPNPRTSNEVQYDQRLFNQSKGMDSGFAGGEDEIYNVYDQAWRGGKDMAQSIY
RPSKNLDKDMYGDDLETRIKTNRFVPDKEFSGSDGRKRGREGPVQFEEDPFGLDKFLEEAKQHG
GSKRPSDSSRPKEHEHEGKKRRKE

hide sequence

RefSeq Acc Id:

ENSRNOP00000054619 ⟸ ENSRNOT00000057807

RefSeq Acc Id:

ENSRNOP00000079929 ⟸ ENSRNOT00000109007

Protein Domains

SKIP_SNW

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4A8G7-F1-model_v2	AlphaFold	D4A8G7	1-536	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13694761

Promoter ID:

EPDNEW_R5286

Type:

initiation region

Name:

Snw1_1

Description:

SNW domain containing 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	6	111,507,761 - 111,507,821	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1561926	AgrOrtholog
BioCyc Gene	G2FUF-36703	BioCyc
Ensembl Genes	ENSRNOG00000037998	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000054619	ENTREZGENE
	ENSRNOP00000054619.2	UniProtKB/TrEMBL
	ENSRNOP00000079929.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000057807	ENTREZGENE
	ENSRNOT00000057807.4	UniProtKB/TrEMBL
	ENSRNOT00000109007.1	UniProtKB/TrEMBL
InterPro	SKI-int_prot_SKIP	UniProtKB/TrEMBL
	SKI-int_prot_SKIP_SNW-dom	UniProtKB/TrEMBL
KEGG Report	rno:500695	UniProtKB/TrEMBL
NCBI Gene	500695	ENTREZGENE
PANTHER	SKIP_SNW	UniProtKB/TrEMBL
Pfam	SKIP_SNW	UniProtKB/TrEMBL
PhenoGen	Snw1	PhenoGen
UniProt	A0A8I5ZP60_RAT	UniProtKB/TrEMBL
	D4A8G7	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2009-04-14	Snw1	SNW domain containing 1	RGD1561926	similar to Nuclear protein SkiP (Ski-interacting protein)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	RGD1561926	similar to Nuclear protein SkiP (Ski-interacting protein)	RGD1561926_predicted	similar to Nuclear protein SkiP (Ski-interacting protein) (predicted)	'predicted' is removed	2292626	APPROVED
2006-03-10	RGD1561926_predicted	similar to Nuclear protein SkiP (Ski-interacting protein) (predicted)		similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) (predicted)	Name updated	1299863	APPROVED
2006-03-07	RGD1561926_predicted	similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62) (predicted)	LOC500695	similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62)	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC500695	similar to Nuclear protein SkiP (Ski-interacting protein) (SNW1 protein) (Nuclear receptor coactivator NCoA-62)			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

RGD Manual Annotations

Imported Annotations - KEGG (archival)

Send us a Message

RGD Manual Annotations

Imported Annotations - KEGG (archival)