Snx9 (sorting nexin 9) - Rat Genome Database

Name: Snx9
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Snx9 (sorting nexin 9) Rattus norvegicus

Analyze

Symbol:

Snx9

Name:

sorting nexin 9

RGD ID:

1584466

Description:

Predicted to enable several functions, including 1-phosphatidylinositol binding activity; Arp2/3 complex binding activity; and protein homodimerization activity. Involved in regulation of synaptic vesicle endocytosis. Is active in presynapse. Orthologous to human SNX9 (sorting nexin 9); INTERACTS WITH bisphenol A; ethanol; nimesulide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC683687; MGC188567; similar to Sorting nexin-9; sorting nexin-9

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):	SNX9 (sorting nexin 9)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Snx9 (sorting nexin 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Snx9 (sorting nexin 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SNX9 (sorting nexin 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SNX9 (sorting nexin 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Snx9 (sorting nexin 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SNX9 (sorting nexin 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SNX9 (sorting nexin 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Snx9 (sorting nexin 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	TRPV1 (transient receptor potential cation channel subfamily V member 1)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	SNX9 (sorting nexin 9)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Snx9 (sorting nexin 9)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	snx9b (sorting nexin 9b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	snx9a (sorting nexin 9a)	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	lst-4	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER)
Drosophila melanogaster (fruit fly):	SH3PX1	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	snx9	Alliance	DIOPT (Ensembl Compara\|OMA\|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	1	48,827,061 - 48,915,215 (+)	NCBI		GRCr8
mRatBN7.2	1	46,424,897 - 46,510,096 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	46,423,553 - 46,509,036 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	46,975,856 - 47,059,358 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	52,963,109 - 53,046,607 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	47,051,280 - 47,134,782 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	46,780,142 - 46,826,250 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	46,779,860 - 46,825,830 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	48,084,891 - 48,130,894 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	1	42,155,821 - 42,201,820 (+)	NCBI		Celera
Cytogenetic Map	1	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

blepharophimosis (ISO)

chromosome 6q24-q25 deletion syndrome (ISO)

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (ISO)

1-chloro-2,4-dinitrobenzene (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

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

2,4,6-tribromophenol (ISO)

2-hydroxypropanoic acid (ISO)

3,4-methylenedioxymethamphetamine (ISO)

4-(ethoxymethylene)-2-phenyloxazol-5-one (ISO)

aflatoxin B1 (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

benzoates (ISO)

bisphenol A (EXP,ISO)

Bisphenol B (ISO)

caffeine (ISO)

calcitriol (ISO)

CGP 52608 (ISO)

choline (ISO)

copper(II) sulfate (ISO)

coumarin (ISO)

coumestrol (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

dextran sulfate (ISO)

dibutyl phthalate (ISO)

Enterolactone (ISO)

ethanol (EXP)

fenthion (ISO)

folic acid (ISO)

FR900359 (ISO)

inulin (ISO)

ivermectin (ISO)

L-methionine (ISO)

menadione (ISO)

methidathion (ISO)

nickel sulfate (ISO)

nimesulide (EXP)

oxaliplatin (EXP)

paracetamol (EXP,ISO)

perfluorooctane-1-sulfonic acid (ISO)

phenobarbital (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

potassium dichromate (ISO)

pyrogallol (ISO)

rac-lactic acid (ISO)

serpentine asbestos (ISO)

sodium arsenite (ISO)

Soman (EXP)

testosterone (ISO)

thimerosal (ISO)

topotecan (EXP)

urethane (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cleavage furrow formation (IBA,ISO)

endocytosis (IBA,ISO)

endosomal transport (IBA,ISO)

intracellular protein transport (ISO)

lipid tube assembly (ISO)

mitotic cytokinesis (ISO)

plasma membrane tubulation (IBA,ISO)

positive regulation of actin filament polymerization (ISO)

positive regulation of membrane protein ectodomain proteolysis (ISO)

protein-containing complex assembly (ISO)

receptor-mediated endocytosis (ISO)

regulation of synaptic vesicle endocytosis (IDA,IMP)

Cellular Component

clathrin-coated pit (ISO)

clathrin-coated vesicle (ISO)

cuticular plate (ISO)

cytoplasm (ISO)

cytoplasmic vesicle (IBA,ISO)

cytoplasmic vesicle membrane (ISO)

cytosol (IEA,ISO)

plasma membrane (IBA,ISO)

presynapse (IDA)

trans-Golgi network (ISO)

Molecular Function

1-phosphatidylinositol binding (ISO)

Arp2/3 complex binding (ISO)

identical protein binding (ISO)

phosphatidylinositol binding (IBA,ISO)

protein binding (ISO)

protein homodimerization activity (ISO)

ubiquitin protein ligase 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.	GOA pipeline	RGD automated data pipeline
3.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
5.	Sorting nexin 9 interacts with dynamin 1 and N-WASP and coordinates synaptic vesicle endocytosis.	Shin N, etal., J Biol Chem. 2007 Sep 28;282(39):28939-28950. doi: 10.1074/jbc.M700283200. Epub 2007 Aug 6.

Additional References at PubMed

PMID:12477932	PMID:12917015	PMID:15703209	PMID:17948057	PMID:18353773	PMID:18388313	PMID:18940612	PMID:19056867	PMID:20491914	PMID:22718350	PMID:23085988	PMID:23437151
PMID:25468996	PMID:25931508	PMID:27766425	PMID:28235806

Genomics

Comparative Map Data

Snx9
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	48,827,061 - 48,915,215 (+)	NCBI		GRCr8
mRatBN7.2	1	46,424,897 - 46,510,096 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	46,423,553 - 46,509,036 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	46,975,856 - 47,059,358 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	52,963,109 - 53,046,607 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	47,051,280 - 47,134,782 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	46,780,142 - 46,826,250 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	46,779,860 - 46,825,830 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	48,084,891 - 48,130,894 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	1	42,155,821 - 42,201,820 (+)	NCBI		Celera
Cytogenetic Map	1	q11	NCBI

SNX9
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	157,823,246 - 157,945,077 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	157,700,387 - 157,945,077 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	6	158,244,278 - 158,366,109 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	158,164,282 - 158,286,097 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	6	158,214,702 - 158,336,518	NCBI
Celera	6	158,893,214 - 159,014,998 (+)	NCBI		Celera
Cytogenetic Map	6	q25.3	NCBI
HuRef	6	155,760,951 - 155,838,449 (+)	NCBI		HuRef
CHM1_1	6	158,506,443 - 158,628,331 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	6	159,069,178 - 159,191,298 (+)	NCBI		T2T-CHM13v2.0

Snx9
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	5,891,599 - 5,982,231 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	5,891,604 - 5,982,229 (+)	Ensembl		GRCm39 Ensembl
GRCm38	17	5,841,324 - 5,931,956 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	5,841,329 - 5,931,954 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	5,841,380 - 5,930,711 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	5,797,862 - 5,887,193 (+)	NCBI		MGSCv36	mm8
Celera	17	6,430,109 - 6,474,633 (+)	NCBI		Celera
Cytogenetic Map	17	A1	NCBI
cM Map	17	3.51	NCBI

Snx9
(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_004955439	4,421,297 - 4,503,393 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955439	4,422,385 - 4,503,408 (-)	NCBI	ChiLan1.0	ChiLan1.0

SNX9
(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	5	177,840,146 - 178,058,536 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	175,841,464 - 175,961,940 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	155,724,026 - 155,844,553 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	157,826,651 - 157,903,363 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	157,824,918 - 157,903,357 (+)	Ensembl	panpan1.1		panPan2

SNX9
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	47,346,214 - 47,457,417 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	47,343,668 - 47,455,937 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	48,191,531 - 48,302,806 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	47,532,216 - 47,644,795 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	47,530,968 - 47,644,779 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	47,412,288 - 47,523,565 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	47,282,028 - 47,393,272 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	47,840,744 - 47,952,026 (+)	NCBI		UU_Cfam_GSD_1.0

Snx9
(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_024404946	142,484,264 - 142,552,848 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936489	9,736,242 - 9,804,874 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936489	9,736,255 - 9,804,841 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SNX9
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	9,130,338 - 9,239,029 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	9,130,360 - 9,239,023 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	11,253,605 - 11,362,628 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SNX9
(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	13	85,468,837 - 85,549,351 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	13	85,468,479 - 85,549,988 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666040	57,787,751 - 57,911,509 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Snx9
(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_004624785	282,512 - 374,378 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624785	283,886 - 374,740 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Snx9
444 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	30
Count of miRNA genes:	26
Interacting mature miRNAs:	28
Transcripts:	ENSRNOT00000075268
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
738020	Pia8	Pristane induced arthritis QTL 8	4.7		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	1	1	65833076	Rat
1554320	Bmd1	Bone mineral density QTL 1	12.2	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	509108	86060548	Rat
7421626	Bp360	Blood pressure QTL 360		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	4393289	49393289	Rat
631688	Hcas2	Hepatocarcinoma susceptibility QTL 2	3	0.0001	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	5925874	115540829	Rat
631508	Sald1	Serum aldosterone level QTL 1	3.7		blood aldosterone amount (VT:0005346)	serum aldosterone level (CMO:0000487)	1	9856001	54856001	Rat
2302038	Pia31	Pristane induced arthritis QTL 31	5.5	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	1	10992065	55992065	Rat
1300167	Hrtrt2	Heart rate QTL 2	4.35		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	1	11481312	75088344	Rat
2313062	Bmd73	Bone mineral density QTL 73	3.9	0.0001	tibia mineral mass (VT:1000283)	compact volumetric bone mineral density (CMO:0001730)	1	11481312	82174945	Rat
2313065	Bss67	Bone structure and strength QTL 67	3.1	0.0001	tibia area (VT:1000281)	tibia total energy absorbed before break (CMO:0001736)	1	11481312	82174945	Rat
2313069	Bss68	Bone structure and strength QTL 68	2.9	0.0001	tibia size trait (VT:0100001)	tibia total energy absorbed before break (CMO:0001736)	1	11481312	82174945	Rat
2313075	Bss66	Bone structure and strength QTL 66	3.4	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	1	11481312	82174945	Rat
2313077	Bss69	Bone structure and strength QTL 69	3.5	0.0001	tibia strength trait (VT:1000284)	bone polar moment of inertia (CMO:0001558)	1	11481312	82174945	Rat
2313092	Bmd72	Bone mineral density QTL 72	2.5	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	1	11481312	82174945	Rat
2313097	Bss70	Bone structure and strength QTL 70	3.5	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	1	11481312	82174945	Rat
1578756	Iddm22	Insulin dependent diabetes mellitus QTL 22	2.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	11835181	56835181	Rat
5684998	Bss101	Bone structure and strength QTL 101	3.6		tibia strength trait (VT:1000284)	tibia ultimate force (CMO:0001734)	1	15431621	49361612	Rat
5684999	Bss102	Bone structure and strength QTL 102	5.5	0.00000072	tibia strength trait (VT:1000284)	tibia stiffness (CMO:0001735)	1	15431621	49361612	Rat
631494	Bp95	Blood pressure QTL 95	40	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	16206210	49268520	Rat
634353	Rends2	Renal damage susceptibility QTL 2		0.05	kidney blood vessel morphology trait (VT:0000530)	organ lesion measurement (CMO:0000677)	1	19333571	56983283	Rat
724520	Bp145	Blood pressure QTL 145	2.1	0.0024	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	20784828	65784828	Rat
1357397	Bw41	Body weight QTL 41	4.19	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	1	22340647	49361612	Rat
1357401	Bw43	Body weight QTL 43	3.75		body mass (VT:0001259)	body weight (CMO:0000012)	1	22340647	49361612	Rat
1357400	Bw62	Body weight QTL62	4.05		inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	1	22340647	67340647	Rat
631495	Bp96	Blood pressure QTL 96	4.52		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	22340647	102268831	Rat
1331785	Rf27	Renal function QTL 27	4.643		urine sodium amount (VT:0006274)	urine sodium level (CMO:0000129)	1	28879780	78430678	Rat
1358359	Sradr1	Stress Responsive Adrenal Weight QTL 1	4.74		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	1	30882023	123479925	Rat
70225	Bp58	Blood pressure QTL 58	3.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	32356093	162846471	Rat
1300172	Bp172	Blood pressure QTL 172	3.56		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	32737273	90665040	Rat
10059597	Bp377	Blood pressure QTL 377	3.42	0.025	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	32737458	199368955	Rat
1354599	Bw29	Body weight QTL 29	3.46	0.001	body mass (VT:0001259)	body weight (CMO:0000012)	1	33449848	78449848	Rat
1354643	Foco2	Food consumption QTL 2	7.17	0.0001	eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	1	33449848	78449848	Rat
8552900	Pigfal1	Plasma insulin-like growth factor 1 level QTL 1	7.4		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	1	34836858	79836858	Rat
8552948	Pigfal11	Plasma insulin-like growth factor 1 level QTL 11	4.7		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	1	34836858	79836858	Rat
9589820	Insglur3	Insulin/glucose ratio QTL 3	10.75	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	1	34836858	79836858	Rat
1331732	Srn4	Serum renin concentration QTL 4	4.467		renin activity (VT:0005581)	plasma renin activity level (CMO:0000116)	1	35239598	78430678	Rat
1331792	Rf29	Renal function QTL 29	4.589		urine potassium amount (VT:0010539)	urine potassium level (CMO:0000128)	1	35239598	78430678	Rat
2313051	Bss57	Bone structure and strength QTL 57	3.7	0.0001	tibia strength trait (VT:1000284)	bone polar moment of inertia (CMO:0001558)	1	43284731	118944897	Rat
2313059	Bss55	Bone structure and strength QTL 55	3.2	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	1	43284731	118944897	Rat
2313072	Bss53	Bone structure and strength QTL 53	4.3	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	1	43284731	118944897	Rat
2313078	Bss54	Bone structure and strength QTL 54	3.5	0.0001	tibia area (VT:1000281)	tibia midshaft cross-sectional area (CMO:0001717)	1	43284731	118944897	Rat
2313094	Bss58	Bone structure and strength QTL 58	3.7	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	1	43284731	118944897	Rat
2313098	Bmd70	Bone mineral density QTL 70	3.6	0.0001	tibia mineral mass (VT:1000283)	compact volumetric bone mineral density (CMO:0001730)	1	43284731	118944897	Rat
2313099	Bss56	Bone structure and strength QTL 56	2.4	0.0001	tibia size trait (VT:0100001)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	1	43284731	118944897	Rat
2302059	Pia36	Pristane induced arthritis QTL 36	3.8	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	1	43333002	88333002	Rat
1331778	Rf28	Renal function QTL 28	4.66		urine potassium amount (VT:0010539)	urine potassium excretion rate (CMO:0000761)	1	45803140	78430678	Rat

Markers in Region

RH128033

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	46,508,616 - 46,508,803 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	46,825,830 - 46,826,016	NCBI	Rnor6.0
Rnor_5.0	1	48,130,474 - 48,130,660	UniSTS	Rnor5.0
Celera	1	42,201,400 - 42,201,586	UniSTS
RH 3.4 Map	1	536.1	UniSTS
Cytogenetic Map	1	q11	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	55	41	17	41	8	11	64	35	41	11	8
Low			2		2				10
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001127637	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090760	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090763	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090771	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC158878	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000075268 ⟹ ENSRNOP00000066186

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	46,462,193 - 46,506,506 (+)	Ensembl
Rnor_6.0 Ensembl	1	46,779,860 - 46,825,830 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000095948 ⟹ ENSRNOP00000095135

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	46,424,968 - 46,509,036 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000096582 ⟹ ENSRNOP00000093750

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	46,424,968 - 46,506,506 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000100236 ⟹ ENSRNOP00000087544

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	46,423,553 - 46,509,036 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000102774 ⟹ ENSRNOP00000091916

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	46,438,160 - 46,509,036 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000111709 ⟹ ENSRNOP00000089654

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	46,461,635 - 46,509,036 (+)	Ensembl

RefSeq Acc Id:

NM_001127637 ⟹ NP_001121109

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	48,830,085 - 48,914,156 (+)	NCBI
mRatBN7.2	1	46,424,968 - 46,509,037 (+)	NCBI
Rnor_6.0	1	46,780,142 - 46,826,250 (+)	NCBI
Rnor_5.0	1	48,084,891 - 48,130,894 (+)	NCBI
Celera	1	42,155,821 - 42,201,820 (+)	RGD

Sequence:

show sequence

GGAGCGCCGAGAGCAGGGCTGAGGCGGAGCCGCCGCGCCCGGCCGGAGCCGCCGAACCGCAGCC
GGAGCCGTCCTGCCCGCCCGCCTAGGGCCGAAGCTCCGCAGCGCGGGAGACCAGCCGGCCCGCA
GGGGCCGGGGAACCGCCCGCCATGGCCACCAAGGCTCGGGTCATGTATGACTTTGCTGCTGAAC
CTGGAAACAATGAACTGACAGTCAATGAAGGGGAGATCATCACAATCACAAACCCGAACGTTGG
TGGAGGATGGCTGGAAGGAAAAAACAGCAAGGGAGAGCAGGGGCTCGTTCCTACGGACTACGTG
GAAATTTTACCCAACGATGGAAAAGACCCGTTTTCTTGTGGAAATTCGGTGGCCGACCAAGCTT
TCCTTGATTCGCTGTCAGCCAGCACGGCTCAAGCCAACTCATCTTCTGCCAACAGCAATAACCA
GGTTGGTGGTGGCAGTGACCCCTGGTCAGCCTGGAATGCTCCCAGATCTGGGAACTGGGACAGC
TCTGATGCCTGGGGCACCAGGACAGATGGGGCTGGCGCTCAGAGGAACAGCAGTGCCAACAACT
GGGACACCGGCTTCGGCCATCCGCAGGCCTACCAAGGACCAGCGACTGGTGATGATGATGAATG
GGATGAAGATTGGGACGACCCCAAGTCCTCCTCACCTTACTTTAAGGATTCAGAACCAGCTGAA
GCAGGGGGCATCCAGCGGGGAAACAGCCGTGCGGGTGCCTCTTCCATGAAGCTGCCCCTTAACA
AATTCCCTGGATTTGCAAAACCTGGCATGGAGCAGTACCTGTTGGCCAAGCAGCTAGCAAAACC
CAAAGAGAAAATCCCCATCATTGTTGGAGATTATGGCCCTATGTGGGTTTATCCTACCTCTACG
TTTGACTGTGTGGTAGCTGATCCCCGGAAAGGTTCCAAAATGTACGGTCTGAAAAGCTACATTG
AGTATCAGCTAACACCCACTAACACTAATCGATCTGTAAACCACAGATATAAGCACTTTGACTG
GTTATATGAACGTCTCCTGGTTAAGTTTGGGTCCGCCATCCCGATCCCTTCTCTTCCAGACAAG
CAGGTCACAGGTCGCTTTGAAGAGGAGTTCATCAAGATGCGCATGGAGCGGCTCCAGGCCTGGA
TGACCAGGATGTGCCGGCACCCCGTGGTGTCAGAAAGTGAAGTTTTCCAGCAGTTCCTGAATTT
CCGAGATGAGAAGGAATGGAAGACTGGCAAGAGGAAGGCTGAGAAAGATGAGCTGGTGGGAGTT
ATGATATTTTCCACCATGGAACCAGAGGCTCCTGACTTGGATTTGATAGAAATAGAACAGAAGT
GTGACGCGGTGGGGAAGTTCACCAAGGCCATGGACGACGGCGTGAAGGAGCTGCTGACCGTGGG
GCAGGAGCACTGGAAGCGCTGCACAGGGCCCTTACCCAAGGAGTATCAGAAGATCGGGAAGGCC
CTGCAGAGCCTAGCGGCCGTCTTCAGCTCCAGCGGTTATCAAGGAGAGACGGACCTTAACAATG
CAATCACAGAAGCCGGGAAGACATACGAGGAGATTGCCAGCCTTGTGGCAGAGCAGCCAAAGAA
GGACCTCCACTTCCTGATGGAGTGCAACCACGAGTACAAAGGCTTTCTTGGCTGCTTCCCGGAC
ATCATTGGTGCCCACAAGGGAGCAATAGAAAAAGTGAAAGAAAGTGACAAGCTGGTTGCAACTA
GTAAAATCACCCCCCAGGACAAGCAGACGATGGTGAAGCGGGTTGGCACCATGTCGTATGCTTT
GCAAGCTGAGATGAATCACTTCCACAGTAACCGGATCTACGATTACAACAGCGTCATCCGCCTC
TACCTGGAGCAGCAAGTGCAATTCTATGAAACAATCGCAGAAAAGCTGAGGCAGGCCCTCGGCC
GCTTCCCAGTTATGTAGACCAGAACGGACACAAGAGAACTCCGAAGTGCTTCTTTTTGACCTGG
GACAATGCAATTCAGTTTTCTCCCCACCCCATCATAAGAGAGAGAGAGAGAGAAGGAAGAAAAC
CAAAAAGACAGAAGTTGATAAAACTCGTTTTCGTCATTAGCCAGCCTAAAGGCGTTGTTGCTTA
GGATGGCCTTCCTTGTTCATTTCGACATATTAGTTACCCAATGGAAATGTCTATTTTTGAAAAA
TACTTAAATTTATCAAGATTTTTGAATGAAGAAATAGGGGTTCCTCCTCCTGGTATTTTACACA
GAATCGTAATTTATATGTTACCTATGATCTTCCAGTTCTTACCCAATGTCAGATAATTAATACT
AATTGCTTTCTTAAAAATATGAAAAATGACAGAATAAAAAATGTATCTTTGTAAAAAAAAAAAA
AAA

hide sequence

RefSeq Acc Id:

XM_039090760 ⟹ XP_038946688

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	48,827,061 - 48,915,215 (+)	NCBI
mRatBN7.2	1	46,424,897 - 46,510,096 (+)	NCBI

RefSeq Acc Id:

XM_039090763 ⟹ XP_038946691

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	48,827,061 - 48,915,215 (+)	NCBI
mRatBN7.2	1	46,424,904 - 46,510,096 (+)	NCBI

RefSeq Acc Id:

XM_039090771 ⟹ XP_038946699

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	48,827,061 - 48,915,215 (+)	NCBI
mRatBN7.2	1	46,424,901 - 46,510,096 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001121109	(Get FASTA)	NCBI Sequence Viewer
	XP_038946688	(Get FASTA)	NCBI Sequence Viewer
	XP_038946691	(Get FASTA)	NCBI Sequence Viewer
	XP_038946699	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI58879	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000066186.3
	ENSRNOP00000087544
	ENSRNOP00000087544.1
	ENSRNOP00000089654.1
	ENSRNOP00000091916.1
	ENSRNOP00000093750.1
	ENSRNOP00000095135
	ENSRNOP00000095135.1

RefSeq Acc Id:

NP_001121109 ⟸ NM_001127637

- UniProtKB:

B0BNM3 (UniProtKB/TrEMBL), M0R9L3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MATKARVMYDFAAEPGNNELTVNEGEIITITNPNVGGGWLEGKNSKGEQGLVPTDYVEILPNDG
KDPFSCGNSVADQAFLDSLSASTAQANSSSANSNNQVGGGSDPWSAWNAPRSGNWDSSDAWGTR
TDGAGAQRNSSANNWDTGFGHPQAYQGPATGDDDEWDEDWDDPKSSSPYFKDSEPAEAGGIQRG
NSRAGASSMKLPLNKFPGFAKPGMEQYLLAKQLAKPKEKIPIIVGDYGPMWVYPTSTFDCVVAD
PRKGSKMYGLKSYIEYQLTPTNTNRSVNHRYKHFDWLYERLLVKFGSAIPIPSLPDKQVTGRFE
EEFIKMRMERLQAWMTRMCRHPVVSESEVFQQFLNFRDEKEWKTGKRKAEKDELVGVMIFSTME
PEAPDLDLIEIEQKCDAVGKFTKAMDDGVKELLTVGQEHWKRCTGPLPKEYQKIGKALQSLAAV
FSSSGYQGETDLNNAITEAGKTYEEIASLVAEQPKKDLHFLMECNHEYKGFLGCFPDIIGAHKG
AIEKVKESDKLVATSKITPQDKQTMVKRVGTMSYALQAEMNHFHSNRIYDYNSVIRLYLEQQVQ
FYETIAEKLRQALGRFPVM

hide sequence

RefSeq Acc Id:

ENSRNOP00000066186 ⟸ ENSRNOT00000075268

RefSeq Acc Id:	XP_038946688 ⟸ XM_039090760
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6GJY7 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038946699 ⟸ XM_039090771
- Peptide Label:	isoform X3
- UniProtKB:	M0R9L3 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038946691 ⟸ XM_039090763
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I6A3C7 (UniProtKB/TrEMBL), A0A8I6GJY7 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSRNOP00000091916 ⟸ ENSRNOT00000102774

RefSeq Acc Id:

ENSRNOP00000089654 ⟸ ENSRNOT00000111709

RefSeq Acc Id:

ENSRNOP00000093750 ⟸ ENSRNOT00000096582

RefSeq Acc Id:

ENSRNOP00000095135 ⟸ ENSRNOT00000095948

RefSeq Acc Id:

ENSRNOP00000087544 ⟸ ENSRNOT00000100236

Protein Domains

PX SH3

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-M0R9L3-F1-model_v2	AlphaFold	M0R9L3	1-593	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:1584466	AgrOrtholog
BioCyc Gene	G2FUF-61631	BioCyc
Ensembl Genes	ENSRNOG00000046874	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000075268.3	UniProtKB/TrEMBL
	ENSRNOT00000095948	ENTREZGENE
	ENSRNOT00000095948.1	UniProtKB/TrEMBL
	ENSRNOT00000096582.1	UniProtKB/TrEMBL
	ENSRNOT00000100236.1	UniProtKB/TrEMBL
	ENSRNOT00000102774.1	UniProtKB/TrEMBL
	ENSRNOT00000111709.1	UniProtKB/TrEMBL
Gene3D-CATH	1.20.1270.60	UniProtKB/TrEMBL
	3.30.1520.10	UniProtKB/TrEMBL
	SH3 Domains	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7935618	IMAGE-MGC_LOAD
InterPro	AH/BAR-dom	UniProtKB/TrEMBL
	Phox	UniProtKB/TrEMBL
	PX_dom_sf	UniProtKB/TrEMBL
	SH3-like_dom	UniProtKB/TrEMBL
	SH3_domain	UniProtKB/TrEMBL
	Snx9	UniProtKB/TrEMBL
	SNX9_BAR	UniProtKB/TrEMBL
	SNX9_PX	UniProtKB/TrEMBL
	SNX9_SH3	UniProtKB/TrEMBL
	Sorting_nexin_WASP-bd-dom	UniProtKB/TrEMBL
KEGG Report	rno:683687	UniProtKB/TrEMBL
MGC_CLONE	MGC:188567	IMAGE-MGC_LOAD
NCBI Gene	683687	ENTREZGENE
PANTHER	PTHR45827:SF2	UniProtKB/TrEMBL
	SORTING NEXIN	UniProtKB/TrEMBL
Pfam	BAR_3_WASP_bdg	UniProtKB/TrEMBL
	PF00787	UniProtKB/TrEMBL
	SH3_1	UniProtKB/TrEMBL
PhenoGen	Snx9	PhenoGen
PIRSF	Snx9	UniProtKB/TrEMBL
PROSITE	PS50195	UniProtKB/TrEMBL
	SH3	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000046874	RatGTEx
SMART	SH3	UniProtKB/TrEMBL
	SM00312	UniProtKB/TrEMBL
Superfamily-SCOP	64268	UniProtKB/TrEMBL
	SH3	UniProtKB/TrEMBL
	SSF103657	UniProtKB/TrEMBL
UniProt	A0A8I6A3C7	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6AC77_RAT	UniProtKB/TrEMBL
	A0A8I6AME1_RAT	UniProtKB/TrEMBL
	A0A8I6GJY7	ENTREZGENE, UniProtKB/TrEMBL
	B0BNM3	ENTREZGENE, UniProtKB/TrEMBL
	M0R9L3	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-09-19	Snx9	sorting nexin 9	LOC683687	similar to Sorting nexin-9	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-19	LOC683687	similar to Sorting nexin-9			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)

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Imported Disease Annotations - ClinVar