Snx17 (sorting nexin 17) - Rat Genome Database

Name: Snx17
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Snx17 (sorting nexin 17) Rattus norvegicus

Analyze

Symbol:

Snx17

Name:

sorting nexin 17

RGD ID:

1306424

Description:

Predicted to enable low-density lipoprotein particle receptor binding activity and phosphatidylinositol binding activity. Predicted to be involved in endocytic recycling and intracellular protein transport. Predicted to act upstream of or within circulatory system development; kidney development; and receptor-mediated endocytosis. Predicted to be located in Golgi apparatus; cytosol; and endosome membrane. Predicted to be part of protein-containing complex. Predicted to be active in early endosome. Orthologous to human SNX17 (sorting nexin 17); INTERACTS WITH (+)-schisandrin B; 3-chloropropane-1,2-diol; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC298836; sorting nexin-17

RGD Orthologs

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):	SNX17 (sorting nexin 17)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OrthoDB, OrthoMCL, Panther
Mus musculus (house mouse):	Snx17 (sorting nexin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Snx17 (sorting nexin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SNX17 (sorting nexin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SNX17 (sorting nexin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Snx17 (sorting nexin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SNX17 (sorting nexin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SNX17 (sorting nexin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Snx17 (sorting nexin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SNX17 (sorting nexin 17)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Mus musculus (house mouse):	Snx17 (sorting nexin 17)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	snx17 (sorting nexin 17)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG5734	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	snx-17	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	snx17	Alliance	DIOPT (OrthoFinder\|PANTHER)

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
GRCr8	6	30,897,500 - 30,902,972 (-)	NCBI		GRCr8
mRatBN7.2	6	25,177,528 - 25,183,001 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	25,177,391 - 25,183,030 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	25,478,365 - 25,483,837 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	25,794,258 - 25,799,730 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	25,273,390 - 25,278,804 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	26,541,137 - 26,546,650 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	26,541,138 - 26,546,545 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	36,359,400 - 36,364,050 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	25,153,586 - 25,159,556 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	25,156,539 - 25,162,509 (-)	NCBI
Celera	6	24,668,832 - 24,674,303 (-)	NCBI		Celera
Cytogenetic Map	6	q14	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

retinitis pigmentosa (ISO)

Tatton-Brown-Rahman syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(1->4)-beta-D-glucan (ISO)

1,2-dimethylhydrazine (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

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

2,4,6-tribromophenol (ISO)

3,3',5,5'-tetrabromobisphenol A (ISO)

3-chloropropane-1,2-diol (EXP)

acrylamide (ISO)

aflatoxin B1 (ISO)

aristolochic acid A (ISO)

bisphenol A (EXP,ISO)

caffeine (ISO)

ciguatoxin CTX1B (ISO)

clobetasol (ISO)

copper(II) sulfate (ISO)

coumarin (ISO)

cyclosporin A (ISO)

cyproconazole (ISO)

decabromodiphenyl ether (ISO)

dipentyl phthalate (EXP)

elemental selenium (ISO)

epoxiconazole (ISO)

fenthion (ISO)

flutamide (EXP)

folic acid (ISO)

FR900359 (ISO)

hypochlorous acid (ISO)

ivermectin (ISO)

lead(0) (ISO)

methidathion (ISO)

methotrexate (ISO)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

propiconazole (ISO)

selenium atom (ISO)

simvastatin (EXP)

sodium arsenite (ISO)

tetrachloromethane (EXP)

thioacetamide (EXP)

trichostatin A (ISO)

valproic acid (ISO)

vitamin E (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

aorta development (IEA,ISO)

cardiac septum development (IEA,ISO)

coronary vasculature development (IEA,ISO)

endocytic recycling (IBA,IEA,ISO,ISS)

intracellular protein transport (IBA,IEA)

kidney development (IEA,ISO)

receptor-mediated endocytosis (IEA,ISO)

signal transduction (IEA)

vesicle-mediated transport (IEA)

Cellular Component

cytoplasm (ISO)

cytoplasmic vesicle (ISO,ISS)

cytoplasmic vesicle membrane (IEA)

cytosol (IEA,ISO,ISS)

early endosome (IBA,IEA,ISO)

endosome (IEA,ISO,ISS)

endosome membrane (IEA,ISO)

Golgi apparatus (IEA,ISO)

intracellular membrane-bounded organelle (ISO)

membrane (IEA)

protein-containing complex (IEA,ISO)

Molecular Function

low-density lipoprotein particle receptor binding (IEA,ISO)

phosphatidylinositol binding (IBA,IEA,ISO,ISS)

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	GOA pipeline	RGD automated data pipeline
5.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:10942595	PMID:11237770	PMID:12169628	PMID:12477932	PMID:15489334	PMID:16396499	PMID:16712798	PMID:23382219	PMID:25807483	PMID:28892079	PMID:30025651

Genomics

Comparative Map Data

Snx17
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	30,897,500 - 30,902,972 (-)	NCBI		GRCr8
mRatBN7.2	6	25,177,528 - 25,183,001 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	25,177,391 - 25,183,030 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	25,478,365 - 25,483,837 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	25,794,258 - 25,799,730 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	25,273,390 - 25,278,804 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	26,541,137 - 26,546,650 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	26,541,138 - 26,546,545 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	36,359,400 - 36,364,050 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	25,153,586 - 25,159,556 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	25,156,539 - 25,162,509 (-)	NCBI
Celera	6	24,668,832 - 24,674,303 (-)	NCBI		Celera
Cytogenetic Map	6	q14	NCBI

SNX17
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	27,370,616 - 27,377,535 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	27,370,496 - 27,377,535 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	27,593,483 - 27,600,402 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	27,446,893 - 27,453,498 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	27,505,039 - 27,511,645	NCBI
Celera	2	27,440,055 - 27,446,660 (+)	NCBI		Celera
Cytogenetic Map	2	p23.3	NCBI
HuRef	2	27,335,366 - 27,342,403 (+)	NCBI		HuRef
CHM1_1	2	27,523,311 - 27,530,348 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	27,413,013 - 27,419,930 (+)	NCBI		T2T-CHM13v2.0

Snx17
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	31,350,634 - 31,356,244 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	31,350,571 - 31,356,487 (+)	Ensembl		GRCm39 Ensembl
GRCm38	5	31,193,262 - 31,198,900 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	31,193,227 - 31,199,143 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	31,495,677 - 31,501,273 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	31,469,885 - 31,475,481 (+)	NCBI		MGSCv36	mm8
Celera	5	28,672,355 - 28,677,949 (+)	NCBI		Celera
Cytogenetic Map	5	B1	NCBI
cM Map	5	17.26	NCBI

Snx17
(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_004955469	9,334,563 - 9,340,766 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955469	9,334,562 - 9,340,766 (+)	NCBI	ChiLan1.0	ChiLan1.0

SNX17
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	12	99,133,521 - 99,140,033 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	99,137,489 - 99,144,001 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	27,374,340 - 27,380,999 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	27,462,726 - 27,469,409 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	27,462,726 - 27,469,409 (+)	Ensembl	panpan1.1		panPan2

SNX17
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	21,326,496 - 21,332,170 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	21,326,503 - 21,331,857 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	21,218,247 - 21,223,929 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	21,647,804 - 21,653,486 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	21,647,756 - 21,653,479 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	21,334,467 - 21,340,148 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	21,344,158 - 21,349,852 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	21,392,167 - 21,397,861 (+)	NCBI		UU_Cfam_GSD_1.0

Snx17
(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_024406292	65,625,240 - 65,632,431 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936493	5,204,846 - 5,212,957 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936493	5,207,134 - 5,212,957 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SNX17
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	111,774,843 - 111,781,474 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	111,775,038 - 111,781,545 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	118,692,559 - 118,698,633 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SNX17
(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	14	80,234,461 - 80,240,825 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	80,230,913 - 80,240,583 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666045	31,911,415 - 31,917,769 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Snx17
(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_004624738	9,444,003 - 9,454,479 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624738	9,443,989 - 9,450,685 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Snx17
32 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	64
Count of miRNA genes:	55
Interacting mature miRNAs:	63
Transcripts:	ENSRNOT00000030518
Prediction methods:	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
738023	Alc17	Alcohol consumption QTL 17	3.1	0.003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	6	1	27574569	Rat
1354616	Despr12	Despair related QTL 12		0.0012	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	6	1	27574569	Rat
1549905	Stresp10	Stress response QTL 10	6.83	0.0066	stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	6	1	27574569	Rat
2300176	Bmd51	Bone mineral density QTL 51	11.7	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	6	1	27574569	Rat
2300190	Bmd52	Bone mineral density QTL 52	11.2	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	6	1	27574569	Rat
1331743	Uae28	Urinary albumin excretion QTL 28	4.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	6	1	34235784	Rat
1578758	Tcas9	Tongue tumor susceptibility QTL 9	3.29		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	6	1	37618905	Rat
1598843	Cm63	Cardiac mass QTL 63	2.6		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	6	1	39036266	Rat
7411603	Foco13	Food consumption QTL 13	5.5	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	6	1	41223769	Rat
8552962	Pigfal16	Plasma insulin-like growth factor 1 level QTL 16	9.4		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	6	1	41223769	Rat
7411542	Bw127	Body weight QTL 127	5.5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	1	41223769	Rat
9589129	Insul24	Insulin level QTL 24	19.06	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	6	1	41223769	Rat
9589048	Scfw3	Subcutaneous fat weight QTL 3	4.57	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	6	1	41223769	Rat
2293709	Bss23	Bone structure and strength QTL 23	5.18	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	6	1	42487980	Rat
2293650	Bss31	Bone structure and strength QTL 31	5.05	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	6	1	42487980	Rat
2293656	Bss28	Bone structure and strength QTL 28	6.79	0.0001	femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	6	1	42487980	Rat
7411584	Foco4	Food consumption QTL 4	4.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	6	1	42838846	Rat
738024	Sach5	Saccharine consumption QTL 5	3.9	0.00039	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	6	1	43394190	Rat
2301972	Bp325	Blood pressure QTL 325	4.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	6	1	72227641	Rat
1300128	Rf16	Renal function QTL 16	3.89		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	6	5074497	34434305	Rat
1300164	Rf15	Renal function QTL 15	3.12		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	6	5074497	54641141	Rat
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
1578665	Bss16	Bone structure and strength QTL 16	4.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	6	11735669	72593685	Rat
1578668	Bmd14	Bone mineral density QTL 14	3.8		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	6	11735669	72593685	Rat
10401812	Kidm54	Kidney mass QTL 54			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	6	14368788	59368788	Rat
10401800	Kidm49	Kidney mass QTL 49			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	6	14368788	59368788	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
1359023	Bp272	Blood pressure QTL 272	2.5		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	16536140	27261739	Rat
2292589	Emca10	Estrogen-induced mammary cancer QTL 10		0.048	mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	6	16536140	61536140	Rat
1354664	Slep2	Serum leptin concentration QTL 2	4.49		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	6	16536140	71636405	Rat
1641898	Colcr4	Colorectal carcinoma resistance QTL4	3.71	0.0007	intestine integrity trait (VT:0010554)	well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)	6	20338777	62613667	Rat
2293839	Kiddil2	Kidney dilation QTL 2	4.8		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	20866422	81133036	Rat
2293841	Kiddil4	Kidney dilation QTL 4	4.4		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	20866422	81133036	Rat

Markers in Region

AW990386

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	25,177,109 - 25,177,250 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	26,540,719 - 26,540,859	NCBI	Rnor6.0
Rnor_5.0	6	36,358,982 - 36,359,122	UniSTS	Rnor5.0
RGSC_v3.4	6	25,153,168 - 25,153,308	UniSTS	RGSC3.4
Celera	6	24,668,414 - 24,668,554	UniSTS
Cytogenetic Map	6	q14	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	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001011981	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063261629	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063261630	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC078931	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473947	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000030518 ⟹ ENSRNOP00000029617

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	25,177,530 - 25,183,008 (-)	Ensembl
Rnor_6.0 Ensembl	6	26,541,138 - 26,544,207 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000091264 ⟹ ENSRNOP00000070417

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	25,177,528 - 25,183,009 (-)	Ensembl
Rnor_6.0 Ensembl	6	26,541,529 - 26,546,545 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000115042 ⟹ ENSRNOP00000082948

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	25,177,528 - 25,182,771 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000118822 ⟹ ENSRNOP00000091898

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	25,177,391 - 25,183,030 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000118894 ⟹ ENSRNOP00000095437

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	25,177,533 - 25,182,997 (-)	Ensembl

RefSeq Acc Id:

NM_001011981 ⟹ NP_001011981

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	30,897,500 - 30,902,972 (-)	NCBI
mRatBN7.2	6	25,177,528 - 25,183,001 (-)	NCBI
Rnor_6.0	6	26,541,137 - 26,546,650 (-)	NCBI
Rnor_5.0	6	36,359,400 - 36,364,050 (-)	NCBI
RGSC_v3.4	6	25,153,586 - 25,159,556 (-)	RGD
Celera	6	24,668,832 - 24,674,303 (-)	RGD

Sequence:

show sequence

GGCCCCCCAAAATGGCGAACTGGGCTGCGGAGACGCGCTGAGTGGCGGAGGCAAGCGAGCAGAG
CCGCTGAGGCCCTGGTAGTACGGAGCTCTGCCTTAGGGAACATGCACTTTTCCATTCCTGAAAC
CGAGTCCCGCAGCGGGGACAGCGGCGGCTCCACCTACGTGGCCTATAACATTCACGTGAATGGA
GTCCTGCACTGTCGTGTGCGCTACAGCCAGCTCCTGGGGCTGCACGAGCAGCTTCGGAAGGAGT
ATGGGGCCAATGTGCTTCCTGCATTCCCCCCAAAGAAGCTTTTCTCTTTGACGCCTGCAGAGGT
AGAACAGAGGAGGGAACAGTTAGAGAAGTACATGCAAGCTGTTCGGCAAGATCCATTGCTTGGG
AGCAGTGAGACCTTTAATAGCTTTCTACGTCGGGCCCAACAGGAGACACAACAGGTCCCCACAG
AGGAGGTTTCCTTGGAAGTGTTGCTCAGTGACGGACAGAAAGTTCTGGTCAATGTGCTAACTTC
TGACCAGACGGAAGACGTCCTGGAGGCCGTGGCTGCAAAGCTGGATCTTCCAGATGACTTGATC
GGATATTTTAGTCTCTTCCTTGTTCGAGAAAAAGAAGATGGCGCCTTTTCTTTTGTACGGAAGC
TTCAGGAGTTTGAGCTGCCTTACGTATCTGTCACCAGTCTTCGGAGTCAAGAGTATAAGATCGT
GCTCAGAAAGAGTTACTGGGACTCTGCCTATGACGACGATGTCATGGAGAACCGGGTTGGCCTG
AACCTGCTTTATGCCCAGACGGTGTCAGACATCGAGCATGGCTGGATCCTGGTCACCAAGGAGC
AGCACCGACAGCTCAAATCTCTGCAAGAGAAGGTCTCCAAAAAGGAGTTCTTGCGGCTGGCCCA
GACTCTGCGGCACTATGGCTATCTGCGCTTTGATGCCTGTGTGGCTGACTTTCCGGAGAAGGAC
TGCCCTGTTGTGGTCAGTGCAGGCAACAGTGAGCTCAGTCTCCAGCTGCGACTCCCAGGCCAGC
AGCTCCGTGAAGGCTCTTTCCGGGTCACCCGAATGCGGTGCTGGCGGGTCACCTCCTCTGTGCC
ACTCCCCAGTGGGGGTACAAGCACTCCAAGCCGGGGTCGGGGTGAGGTACGCCTGGAACTGGCT
TTTGAATACCTCATGAGCAAGGACCGGCTACAGTGGGTCACCATCACCAGCCCACAGGCTATCA
TGATGAGCATCTGCCTGCAGTCCATGGTAGATGAGCTGATGGTGAAGAAGTCTGGGGGCAGTAT
CAGGAAGATGCTGCGTCGGAGGGTGGGGGGCAACCTGAGACGTTCAGACAGCCAGCAAGCAGTG
AAGTCCCCACCATTGCTCGAATCACCAGATGCCAGCCGGGAATCCATGGTCAAACTCTCAAGTA
AACTGAGTGCGGTGAGCTTGCGGGGAATTGGCAGTCCCAGCACAGATGCCAGTGCCAGTGCCGT
CCACGGCAATTTCGCCTTCGAGGGCATTGGAGATGAGGATCTGTAATCTCAGCTGCCTGGATGT
CTGCCCTCTACCCAAGAGGAGATTTATACAAACTTACCCTGTGCCTATGCTCCCAAGTTGGAGT
CTTTTCCTACCCCCTTCCTACTTGTTCTGTTCCCTCTTGGCCAGGGGCCTCCTAACGTACCTTC
CCTTTCTTGGGCTGGCTGCACAAAAGATCACCGTCTCTGTGTCAGAGCTGGCCCTTGATGCCAA
ATTAGCATTTAGTATTTTGCACAAAGTCCAAGGGACTGTGGCTGCCTGCCTTGGAGAGGAGCTA
GAGCTCTCCGTGGATTGCTTCTGACTTTTTAGGGCCAGGCCATGGGCAAAGGGTGGACAGAGGT
CTCTGAATGCTCTGAGCAGCTCCCCATCATTAAACACAGCCTGATTGCCACCTAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_063261629 ⟹ XP_063117699

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	30,897,500 - 30,902,940 (-)	NCBI

RefSeq Acc Id:

XM_063261630 ⟹ XP_063117700

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	30,897,500 - 30,901,455 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001011981	(Get FASTA)	NCBI Sequence Viewer
	XP_063117699	(Get FASTA)	NCBI Sequence Viewer
	XP_063117700	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH78931	(Get FASTA)	NCBI Sequence Viewer
	EDM02924	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000029617.7
	ENSRNOP00000070417.2
	ENSRNOP00000082948.1
	ENSRNOP00000091898
	ENSRNOP00000091898.1
	ENSRNOP00000095437.1
GenBank Protein	Q6AYS6	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001011981 ⟸ NM_001011981

- UniProtKB:

Q6AYS6 (UniProtKB/Swiss-Prot), A6HA69 (UniProtKB/TrEMBL), A0A8I6AMM3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MHFSIPETESRSGDSGGSTYVAYNIHVNGVLHCRVRYSQLLGLHEQLRKEYGANVLPAFPPKKL
FSLTPAEVEQRREQLEKYMQAVRQDPLLGSSETFNSFLRRAQQETQQVPTEEVSLEVLLSDGQK
VLVNVLTSDQTEDVLEAVAAKLDLPDDLIGYFSLFLVREKEDGAFSFVRKLQEFELPYVSVTSL
RSQEYKIVLRKSYWDSAYDDDVMENRVGLNLLYAQTVSDIEHGWILVTKEQHRQLKSLQEKVSK
KEFLRLAQTLRHYGYLRFDACVADFPEKDCPVVVSAGNSELSLQLRLPGQQLREGSFRVTRMRC
WRVTSSVPLPSGGTSTPSRGRGEVRLELAFEYLMSKDRLQWVTITSPQAIMMSICLQSMVDELM
VKKSGGSIRKMLRRRVGGNLRRSDSQQAVKSPPLLESPDASRESMVKLSSKLSAVSLRGIGSPS
TDASASAVHGNFAFEGIGDEDL

hide sequence

RefSeq Acc Id:

ENSRNOP00000029617 ⟸ ENSRNOT00000030518

RefSeq Acc Id:

ENSRNOP00000070417 ⟸ ENSRNOT00000091264

RefSeq Acc Id:

ENSRNOP00000091898 ⟸ ENSRNOT00000118822

RefSeq Acc Id:

ENSRNOP00000082948 ⟸ ENSRNOT00000115042

RefSeq Acc Id:

ENSRNOP00000095437 ⟸ ENSRNOT00000118894

RefSeq Acc Id:	XP_063117699 ⟸ XM_063261629
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6AGG0 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063117700 ⟸ XM_063261630
- Peptide Label:	isoform X2

Protein Domains

PX Ras-associating

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q6AYS6-F1-model_v2	AlphaFold	Q6AYS6	1-470	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1306424	AgrOrtholog
BioCyc Gene	G2FUF-38350	BioCyc
Ensembl Genes	ENSRNOG00000026884	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000030518.7	UniProtKB/TrEMBL
	ENSRNOT00000091264.2	UniProtKB/TrEMBL
	ENSRNOT00000115042.1	UniProtKB/TrEMBL
	ENSRNOT00000118822	ENTREZGENE
	ENSRNOT00000118822.1	UniProtKB/TrEMBL
	ENSRNOT00000118894.1	UniProtKB/TrEMBL
Gene3D-CATH	1.20.80.60	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	2.30.29.30	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	3.30.1520.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7107232	IMAGE-MGC_LOAD
InterPro	PH-like_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Phox	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PX_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	RA_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17-31_FERM_F1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17-31_FERM_F2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17/27/31	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17/31_FERM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17_FERM-like_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:298836	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE	MGC:93729	IMAGE-MGC_LOAD
NCBI Gene	298836	ENTREZGENE
PANTHER	PTHR12431	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR12431:SF16	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	PF00787	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17-27-31_F1_FERM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17-31_F2_FERM	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SNX17_FERM_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Snx17	PhenoGen
PROSITE	PS50195	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PS50200	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000026884	RatGTEx
SMART	SM00312	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF64268	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A0G2JXV4_RAT	UniProtKB/TrEMBL
	A0A8I6AGG0	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6AMM3	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6GA49_RAT	UniProtKB/TrEMBL
	A6HA69	ENTREZGENE, UniProtKB/TrEMBL
	F1LMM2_RAT	UniProtKB/TrEMBL
	Q6AYS6	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-12-06	Snx17	sorting nexin 17	Snx17_predicted	sorting nexin 17 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Snx17_predicted	sorting nexin 17 (predicted)			Symbol and Name status set to approved	70820	APPROVED

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)

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Imported Disease Annotations - ClinVar