Slc6a9 (solute carrier family 6 member 9)

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Gene: Slc6a9 (solute carrier family 6 member 9) Rattus norvegicus

Analyze

Symbol:

Slc6a9

Name:

solute carrier family 6 member 9

RGD ID:

621243

Description:

Exhibits glycine transmembrane transporter activity. Involved in glycine import across plasma membrane. Localizes to several cellular components, including cytoplasmic vesicle; hippocampal mossy fiber to CA3 synapse; and integral component of synaptic membrane. Orthologous to human SLC6A9 (solute carrier family 6 member 9); INTERACTS WITH (+)-schisandrin B; 1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane; 2,2',4,4'-Tetrabromodiphenyl ether.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

glycine transporter 1; glycine transporter variant 1a; GLYT-1; GLYT-1b; Glyt1; sodium- and chloride-dependent glycine transporter 1; solute carrier family 6 (neurotransmitter transporter, glycine), member 9

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):	SLC6A9 (solute carrier family 6 member 9)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB
Mus musculus (house mouse):	Slc6a9 (solute carrier family 6 (neurotransmitter transporter, glycine), member 9)	HGNC	EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Slc6a9 (solute carrier family 6 member 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SLC6A9 (solute carrier family 6 member 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SLC6A9 (solute carrier family 6 member 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Slc6a9 (solute carrier family 6 member 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SLC6A9 (solute carrier family 6 member 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	SLC6A9 (solute carrier family 6 member 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Slc6a9 (solute carrier family 6 member 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SLC6A9 (solute carrier family 6 member 9)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Mus musculus (house mouse):	Slc6a9 (solute carrier family 6 (neurotransmitter transporter, glycine), member 9)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	slc6a9 (solute carrier family 6 member 9)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	CG1698	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	List	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	NAAT1	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	CG15279	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	CG8850	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)
Drosophila melanogaster (fruit fly):	CG4476	Alliance	DIOPT (Ensembl Compara\|OMA\|PANTHER)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	131,374,562 - 131,408,733 (+)	NCBI
Rnor_6.0 Ensembl	5	136,669,674 - 136,703,697 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	5	136,669,674 - 136,703,702 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	5	140,458,723 - 140,492,751 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	138,300,869 - 138,334,893 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	138,313,795 - 138,339,599 (+)	NCBI
Celera	5	129,922,904 - 129,957,106 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

amphetamine abuse (ISO)

Charcot-Marie-Tooth disease dominant intermediate C (ISO)

glycine encephalopathy (ISS)

GLYCINE ENCEPHALOPATHY WITH NORMAL SERUM GLYCINE (ISO)

prostate cancer (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane (EXP)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

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

2,3,7,8-Tetrachlorodibenzofuran (EXP)

2-butoxyethanol (ISO)

3,3',4,4'-tetrachlorobiphenyl (ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

8-Br-cAMP (ISO)

acetamide (EXP)

adefovir pivoxil (ISO)

aflatoxin B1 (ISO)

aflatoxin B2 (ISO)

amphetamine (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenous acid (ISO)

benzamide (EXP)

benzo[a]pyrene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

butan-1-ol (ISO)

cadmium dichloride (EXP,ISO)

cannabidiol (ISO)

carbon nanotube (ISO)

casticin (ISO)

chloroacetaldehyde (ISO)

choline (ISO)

cidofovir anhydrous (ISO)

ciguatoxin CTX1B (ISO)

cisplatin (ISO)

clobetasol (ISO)

clodronic acid (ISO)

clofibric acid (EXP)

cobalt dichloride (EXP)

copper atom (ISO)

copper(0) (ISO)

coumarin (EXP)

cyclosporin A (EXP,ISO)

decabromodiphenyl ether (EXP)

dexamethasone (ISO)

diarsenic trioxide (ISO)

diazinon (ISO)

dibenzo[a,l]pyrene (ISO)

dibutyl phthalate (EXP)

dichlorine (EXP)

dioxygen (ISO)

disodium selenite (ISO)

disulfiram (ISO)

diuron (EXP)

doxorubicin (ISO)

endosulfan (EXP,ISO)

ethanol (EXP,ISO)

fenofibrate (EXP,ISO)

fipronil (EXP)

flavonoids (EXP)

flutamide (EXP)

folic acid (ISO)

glycine betaine (EXP)

glyphosate (EXP)

ibuprofen (ISO)

ifosfamide (ISO)

L-methionine (ISO)

lead diacetate (EXP)

mercury dichloride (EXP)

metformin (EXP)

methamphetamine (ISO)

methotrexate (ISO)

N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal (ISO)

N-methyl-4-phenylpyridinium (EXP,ISO)

N-nitrosodiethylamine (EXP)

nefazodone (EXP)

nimesulide (EXP)

nobiletin (EXP,ISO)

oxaliplatin (EXP)

oxycodone (EXP)

ozone (EXP)

paracetamol (ISO)

paraquat (EXP)

pentachlorophenol (ISO)

perfluorononanoic acid (ISO)

perfluorooctane-1-sulfonic acid (ISO)

phenethyl caffeate (EXP)

phenobarbital (ISO)

phorone (EXP)

pirinixic acid (ISO)

pregnenolone 16alpha-carbonitrile (EXP)

pyrazinecarboxamide (EXP)

rifampicin (ISO)

rotenone (EXP,ISO)

sevoflurane (EXP)

silicon dioxide (ISO)

sodium arsenite (ISO)

sodium fluoride (ISO)

sunitinib (ISO)

tamoxifen (ISO)

tauroursodeoxycholic acid (EXP)

tetrachloroethene (ISO)

tetrachloromethane (EXP)

thapsigargin (ISO)

titanium dioxide (ISO)

toluene (EXP)

topotecan (EXP)

triphenyl phosphate (EXP)

triptonide (ISO)

tris(2-butoxyethyl) phosphate (ISO)

troglitazone (EXP)

tunicamycin (ISO)

urethane (ISO)

vanadium atom (ISO)

vanadium(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

glycine import across plasma membrane (IDA,ISO)

glycine secretion, neurotransmission (ISO)

glycine transport (ISO)

negative regulation of NMDA glutamate receptor activity (ISO)

neurotransmitter uptake (ISO)

positive regulation of heme biosynthetic process (ISO)

positive regulation of hemoglobin biosynthetic process (ISO)

positive regulation of iron ion import across plasma membrane (ISO)

positive regulation of iron ion transmembrane transporter activity (ISO)

sodium ion transmembrane transport (IBA)

Cellular Component

apical plasma membrane (ISO)

asymmetric synapse (IDA)

basal plasma membrane (ISO)

basolateral plasma membrane (ISO)

dense core granule (IDA)

endosome (IDA)

hippocampal mossy fiber to CA3 synapse (IDA)

integral component of plasma membrane (IBA)

integral component of postsynaptic membrane (IDA)

integral component of presynaptic membrane (IDA)

integral component of synaptic vesicle membrane (IDA)

lateral plasma membrane (ISO)

parallel fiber to Purkinje cell synapse (IDA)

plasma membrane (IDA,ISO)

postsynaptic density (IDA)

Molecular Function

amino acid:sodium symporter activity (IEA)

glycine transmembrane transporter activity (IDA,ISO,TAS)

protein binding (IPI)

References

References - curated


1.	Borowsky B, etal., Neuron 1993 May;10(5):851-63.
2.	Cubelos B, etal., Cereb Cortex. 2005 Apr;15(4):448-59. doi: 10.1093/cercor/bhh147.
3.	Cubelos B, etal., J Neurochem. 2005 Nov;95(4):1047-58.
4.	Cubelos B, etal., Neurochem Int. 2014 Jul;73:204-10. doi: 10.1016/j.neuint.2013.09.002. Epub 2013 Sep 11.
5.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6.	Geerlings A, etal., J Neurochem. 2002 Jul;82(1):58-65. doi: 10.1046/j.1471-4159.2002.00930.x.
7.	GOA data from the GO Consortium
8.	Guastella J, etal., Proc Natl Acad Sci U S A 1992 Aug 1;89(15):7189-93.
9.	MGD data from the GO Consortium
10.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
11.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12.	RGD automated import pipeline for gene-chemical interactions
13.	Smith KE, etal., Neuron 1992 May;8(5):927-35.

Additional References at PubMed

PMID:1618338	PMID:9786914	PMID:10722844	PMID:12477932	PMID:12602503	PMID:16289893	PMID:17724084	PMID:17980459	PMID:18695510	PMID:18775105	PMID:18778746	PMID:18973561
PMID:19473961	PMID:19666071	PMID:19711201	PMID:21574997	PMID:22871113	PMID:22988142	PMID:23529192	PMID:25057202	PMID:26200505	PMID:26302655

Genomics

Comparative Map Data

Slc6a9
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	131,374,562 - 131,408,733 (+)	NCBI
Rnor_6.0 Ensembl	5	136,669,674 - 136,703,697 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	5	136,669,674 - 136,703,702 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	5	140,458,723 - 140,492,751 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	138,300,869 - 138,334,893 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	138,313,795 - 138,339,599 (+)	NCBI
Celera	5	129,922,904 - 129,957,106 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

SLC6A9
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	1	43,991,500 - 44,031,467 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	1	43,996,483 - 44,031,462 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	1	44,462,155 - 44,497,134 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	44,234,742 - 44,269,721 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	1	44,132,286 - 44,152,090	NCBI
Celera	1	42,745,693 - 42,780,672 (-)	NCBI
Cytogenetic Map	1	p34.1	NCBI
HuRef	1	42,577,665 - 42,612,669 (-)	NCBI		HuRef
CHM1_1	1	44,578,322 - 44,613,386 (-)	NCBI		CHM1_1

Slc6a9
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	117,692,240 - 117,726,502 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	4	117,691,703 - 117,732,395 (+)	Ensembl
GRCm38	4	117,835,258 - 117,869,305 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	117,834,506 - 117,875,198 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	117,507,863 - 117,541,910 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	4	117,333,190 - 117,367,237 (+)	NCBI			mm8
Celera	4	116,550,328 - 116,584,414 (+)	NCBI		Celera
Cytogenetic Map	4	D1	NCBI
cM Map	4	53.62	NCBI

Slc6a9
(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_004955537	3,520,516 - 3,550,022 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955537	3,520,516 - 3,549,492 (-)	NCBI	ChiLan1.0	ChiLan1.0

SLC6A9
(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	1	44,669,364 - 44,704,882 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	44,664,839 - 44,704,882 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	43,298,326 - 43,333,345 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

SLC6A9
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	15	16,235,342 - 16,267,161 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	15	16,235,482 - 16,267,933 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	15	16,356,708 - 16,389,086 (+)	NCBI
ROS_Cfam_1.0	15	16,390,376 - 16,422,650 (+)	NCBI
UMICH_Zoey_3.1	15	16,189,225 - 16,221,582 (+)	NCBI
UNSW_CanFamBas_1.0	15	16,257,816 - 16,290,585 (+)	NCBI
UU_Cfam_GSD_1.0	15	16,330,949 - 16,363,315 (+)	NCBI

Slc6a9
(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_024405058	59,487,760 - 59,520,209 (-)	NCBI
SpeTri2.0	NW_004936474	25,312,544 - 25,344,993 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC6A9
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	167,268,957 - 167,301,599 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	167,267,193 - 167,301,598 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	154,781,274 - 154,783,428 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC6A9
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	88,774,354 - 88,809,726 (+)	NCBI
ChlSab1.1 Ensembl	20	88,774,339 - 88,808,669 (+)	Ensembl
Vero_WHO_p1.0	NW_023666033	28,117,914 - 28,153,448 (-)	NCBI

Slc6a9
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624892	3,275,034 - 3,308,579 (-)	NCBI

Position Markers

D5Mit14

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	131,378,081 - 131,378,254 (+)	MAPPER
Rnor_6.0	5	136,673,054 - 136,673,226	NCBI	Rnor6.0
Rnor_5.0	5	140,462,103 - 140,462,275	UniSTS	Rnor5.0
RGSC_v3.4	5	138,304,248 - 138,304,421	RGD	RGSC3.4
RGSC_v3.4	5	138,304,249 - 138,304,421	UniSTS	RGSC3.4
RGSC_v3.1	5	138,309,475 - 138,309,647	RGD
Celera	5	129,926,365 - 129,926,537	UniSTS
RH 3.4 Map	5	860.5	UniSTS
RH 3.4 Map	5	860.5	RGD
RH 2.0 Map	5	849.6	RGD
Cytogenetic Map	5	q36	UniSTS

D5Wox28

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	131,392,020 - 131,392,174 (+)	MAPPER
Rnor_6.0	5	136,686,993 - 136,687,146	NCBI	Rnor6.0
Rnor_5.0	5	140,476,042 - 140,476,195	UniSTS	Rnor5.0
RGSC_v3.4	5	138,318,189 - 138,318,342	UniSTS	RGSC3.4
Celera	5	129,940,391 - 129,940,558	UniSTS
Cytogenetic Map	5	q36	UniSTS

RH143473

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	131,405,819 - 131,405,996 (+)	MAPPER
Rnor_6.0	5	136,700,789 - 136,700,965	NCBI	Rnor6.0
Rnor_5.0	5	140,489,838 - 140,490,014	UniSTS	Rnor5.0
RGSC_v3.4	5	138,331,985 - 138,332,161	UniSTS	RGSC3.4
Celera	5	129,954,204 - 129,954,380	UniSTS
RH 3.4 Map	5	855.9	UniSTS
Cytogenetic Map	5	q36	UniSTS

RH141917

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	131,408,476 - 131,408,656 (+)	MAPPER
Rnor_6.0	5	136,703,446 - 136,703,625	NCBI	Rnor6.0
Rnor_5.0	5	140,492,495 - 140,492,674	UniSTS	Rnor5.0
RGSC_v3.4	5	138,334,642 - 138,334,821	UniSTS	RGSC3.4
Celera	5	129,956,855 - 129,957,034	UniSTS
RH 3.4 Map	5	860.8	UniSTS
Cytogenetic Map	5	q36	UniSTS

AA943440

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	131,399,543 - 131,399,735 (+)	MAPPER
Rnor_6.0	5	136,694,516 - 136,694,707	NCBI	Rnor6.0
Rnor_5.0	5	140,483,565 - 140,483,756	UniSTS	Rnor5.0
RGSC_v3.4	5	138,325,712 - 138,325,903	UniSTS	RGSC3.4
Celera	5	129,947,928 - 129,948,119	UniSTS
RH 3.4 Map	5	858.2	UniSTS
Cytogenetic Map	5	q36	UniSTS

Glyt1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	131,408,382 - 131,408,588 (+)	MAPPER
Rnor_6.0	5	136,703,352 - 136,703,557	NCBI	Rnor6.0
Rnor_5.0	5	140,492,401 - 140,492,606	UniSTS	Rnor5.0
RGSC_v3.4	5	138,334,548 - 138,334,753	UniSTS	RGSC3.4
Celera	5	129,956,761 - 129,956,966	UniSTS
Cytogenetic Map	5	q36	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	35788756	147487820	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	40777918	154732375	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	47745646	167946134	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	51418671	147487820	Rat
70189	Mcs5	Mammary carcinoma susceptibility QTL 5	10.51		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	56991667	137729065	Rat
61426	Scl2	Serum cholesterol level QTL 2	7.3	0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	61086525	149030144	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	61612600	168109659	Rat
1354598	Srn6	Serum renin concentration QTL 6	3.8		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	5	71552569	157225114	Rat
1302790	Scl20	Serum cholesterol level QTL 20	6.4	0.0001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	84963058	173504662	Rat
6903316	Bw113	Body weight QTL 113	2	0.0103	body mass (VT:0001259)	body weight (CMO:0000012)	5	91884213	136884213	Rat
631527	Tls1	T-lymphoma susceptibility QTL 1	0	0.001	thymus integrity trait (VT:0010555)	post-insult time to onset of T-cell lymphoma (CMO:0001907)	5	93273130	138273130	Rat
61452	Ciaa5	CIA Autoantibody QTL 5	3.5		blood autoantibody amount (VT:0003725)	calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)	5	97921932	149030144	Rat
1331796	Thshl2	Thyroid stimulating hormone level QTL 2	2.3		blood thyroid-stimulating hormone amount (VT:0005119)	serum thyroid stimulating hormone level (CMO:0001248)	5	100723739	153577831	Rat
2317753	Glom24	Glomerulus QTL 24	3.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	5	101265591	141912026	Rat
1358187	Emca1	Estrogen-induced mammary cancer QTL 1	4.4		mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	5	102945579	154732228	Rat
1578673	Bmd13	Bone mineral density QTL 13	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	5	107119214	152119214	Rat
2317056	Wbc3	White blood cell count QTL 3	2.51	0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	5	111278451	156278451	Rat
1549838	Bss4	Bone structure and strength QTL 4	9.2		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	5	112279412	157279412	Rat
7207481	Bss106	Bone structure and strength QTL 106	7.9		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	112279412	157279412	Rat
7207486	Bss109	Bone structure and strength QTL 109			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	5	112279412	157279412	Rat
7207488	Bss110	Bone structure and strength QTL 1	8.4		femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	5	112279412	157279412	Rat
7207491	Bss112	Bone structure and strength QTL 112	7		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	5	112279412	157279412	Rat
1298089	Scl14	Serum cholesterol level QTL 14	5.8	0.0004	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	114140832	159140832	Rat
1598847	Cm62	Cardiac mass QTL 62	3.4		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	114140832	159140832	Rat
8552960	Pigfal15	Plasma insulin-like growth factor 1 level QTL 15			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	116767924	161767924	Rat
8694198	Abfw3	Abdominal fat weight QTL 3	16.13	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	5	116767924	161767924	Rat
8694389	Bw160	Body weight QTL 160	6.17	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	5	116767924	161767924	Rat
8694441	Bw169	Body weight QTL 169	17.61	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	5	116767924	161767924	Rat
1581510	Cm54	Cardiac mass QTL 54	3.4	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	125455818	149568944	Rat
2293642	Bss37	Bone structure and strength QTL 37	4.64	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	125455818	157225114	Rat
1641920	Colcs1	Colorectal carcinoma susceptibility QTL 1	2.99	0.0055	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	5	128687766	173687766	Rat
7394710	Emca12	Estrogen-induced mammary cancer QTL 12			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	129038716	139099229	Rat
1300122	Wbc1	White blood cell count QTL 1	2.75		leukocyte quantity (VT:0000217)	total white blood cell count (CMO:0000365)	5	130531300	145726262	Rat
10053720	Scort26	Serum corticosterone level QTL 26	2.06	0.0147	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	131077716	173707219	Rat
724525	Bp147	Blood pressure QTL 147	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	132551937	173707219	Rat
1581505	Rf54	Renal function QTL 54			kidney physiology trait (VT:0002136)	kidney 20-HETE level (CMO:0001854)	5	133313668	138454239	Rat
7365049	Bp359	Blood pressure QTL 359			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	133351969	140120264	Rat
1598819	Bp292	Blood pressure QTL 292	4.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	133943857	173707219	Rat
1598861	Cm64	Cardiac mass QTL 64	2.9		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	133943857	173707219	Rat
634349	Bp139	Blood pressure QTL 139		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	134197905	173707219	Rat
1331803	Rf32	Renal function QTL 32	2.798		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	134502121	149030144	Rat
70156	Niddm30	Non-insulin dependent diabetes mellitus QTL 30	3.98		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	5	134502140	157212422	Rat
8552908	Pigfal4	Plasma insulin-like growth factor 1 level QTL 4	6.6		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	134712342	173707219	Rat
8694169	Bw148	Body weight QTL 148	5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	134712342	173707219	Rat
738018	Anxrr4	Anxiety related response QTL 4	5.1		exploratory behavior trait (VT:0010471)	percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)	5	136354114	173707219	Rat
7794791	Mcs33	Mammary carcinoma susceptibility QTL 33	1.93		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	5	136640731	173707219	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	221
Count of miRNA genes:	129
Interacting mature miRNAs:	159
Transcripts:	ENSRNOT00000048770
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.

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		14	33	33	4	33			64	4	21	9
Low	3	29	23	8	14	8	8	11	10	31	20	2	8
Below cutoff			1		1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053818	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006238625	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109142	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109143	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AH006974	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC128732	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474008	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000162	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	L13600	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M88595	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M95413	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000048770 ⟹ ENSRNOP00000040252

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	5	136,669,674 - 136,703,697 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000085527 ⟹ ENSRNOP00000070161

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	5	136,683,592 - 136,702,750 (+)	Ensembl

RefSeq Acc Id:

NM_053818 ⟹ NP_446270

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	131,374,702 - 131,408,728 (+)	NCBI
Rnor_6.0	5	136,669,674 - 136,703,697 (+)	NCBI
Rnor_5.0	5	140,458,723 - 140,492,751 (+)	NCBI
RGSC_v3.4	5	138,300,869 - 138,334,893 (+)	RGD
Celera	5	129,922,904 - 129,957,106 (+)	RGD

Sequence:

show sequence

CTGCAGAGAGCCTCGGGAGGCTGATGCAACTTTCCCTTTAAGAAAGCCACCTGGGCGCACCGCG
GTGCGGACCCAGCACGCCTGGGCCGGGGGCTGCAGTATGCTCTTGAGGCCTCTTGTCTGAGAGG
CACTGAACGCAGGAGTCTGCAGGTGTGGTCCAGATCTCCAGATCCCCCAACCCACTGCCACCAT
GGTAGGAAAAGGTGCCAAAGGGATGCTGAATGGTGCTGTGCCCAGCGAGGCCACCAAGAAGGAC
CAGAACCTCACACGGGGCAACTGGGGCAACCAGATCGAGTTTGTACTGACGAGCGTGGGCTATG
CCGTGGGCCTGGGCAATGTGTGGCGTTTCCCATACCTCTGCTATCGCAACGGGGGAGGCGCCTT
CATGTTTCCCTACTTCATCATGCTGGTCTTCTGCGGCATTCCTCTCTTCTTCATGGAGCTCTCC
TTCGGCCAGTTTGCAAGCCAGGGCTGCCTGGGGGTCTGGAGGATCAGCCCCATGTTCAAAGGCG
TGGGCTATGGTATGATGGTGGTGTCCACGTACATCGGTATCTACTACAACGTGGTCATCTGCAT
CGCCTTCTACTACTTCTTCTCGTCCATGACGCATGTGCTGCCCTGGGCTTACTGCAATAATCCC
TGGAACACACCTGACTGTGCCGGTGTGCTGGATGCTTCCAATCTCACCAATGGCTCCCGGCCCA
CTGCCCTGTCTGGCAACCTGTCTCACCTGTTCAACTACACCTTGCAAAGGACCAGCCCCAGTGA
GGAGTACTGGAGGCTGTATGTGCTGAAGCTGTCGGATGACATTGGAGATTTTGGAGAAGTGCGG
CTTCCTCTCCTAGGCTGCCTTGGCGTCTCCTGGGTGGTTGTCTTCCTCTGCCTCATTCGAGGAG
TCAAGTCTTCAGGGAAAGTGGTGTACTTCACGGCCACATTTCCCTATGTGGTGCTGACCATTCT
GTTTGTTCGTGGAGTGACCCTGGAAGGAGCCTTCACGGGTATCATGTACTACCTGACCCCAAAG
TGGGACAAGATCCTGGAGGCCAAGGTGTGGGGGGATGCAGCCTCTCAGATCTTCTATTCCCTGG
GCTGTGCATGGGGTGGCCTCATCACCATGGCATCCTACAACAAATTCCACAACAACTGCTACCG
GGACAGCGTCATCATCAGCATCACCAATTGTGCTACCAGTGTCTATGCTGGCTTCGTCATCTTC
TCTATCCTAGGCTTCATGGCCAATCACCTGGGTGTGGATGTGTCTCGGGTGGCAGACCACGGGC
CCGGGCTAGCTTTCGTGGCTTACCCCGAGGCTCTCACACTGCTTCCCATCTCCCCGCTCTGGTC
CTTGCTGTTTTTCTTCATGCTCATCCTGCTGGGACTCGGTACTCAGTTCTGCCTCCTGGAGACC
CTAGTCACTGCCATTGTGGATGAGGTGGGGAATGAGTGGATTCTGCAGAAGAAGACCTACGTGA
CCTTGGGTGTGGCTGTGGCTGGCTTCTTGCTGGGTATCCCTCTTACCAGCCAGGCGGGCATCTA
CTGGCTGCTGTTGATGGACAACTACGCAGCCAGCTTCTCCTTGGTTGTCATCTCCTGCATCATG
TGCGTGTCCATCATGTATATCTATGGGCACCGGAACTACTTCCAGGACATTCAGATGATGCTGG
GGTTCCCACCGCCTCTCTTCTTCCAGATCTGTTGGCGTTTTGTCTCTCCCACTATCATCTTTTT
CATTCTCATCTTCACGGTGATCCAGTACCGGCCAATCACTTACAACCACTACCAGTACCCAGGC
TGGGCTGTGGCCATCGGCTTCCTCATGGCTTTGTCGTCTGTCATCTGCATCCCATTGTACGCAT
TGTTCCAGCTCTGCCGCACAGATGGGGACACACTTCTTCAGCGTTTGAAAAATGCCACAAAGCC
AAGCAGAGACTGGGGCCCTGCCCTCCTGGAGCACCGGACTGGGCGCTATGCCCCCACTACAACC
CCCTCTCCTGAAGATGGGTTTGAGGTTCAGCCACTGCACCCGGACAAGGCCCAGATCCCCATCG
TGGGCAGTAACGGCTCCAGCCGCCTCCAGGACTCCCGGATATGAGCACAGTTGTTGCAAGGGGA
GAAGCCCCACCCAACCCTTGCTCCTACCACAGAGACTGAGGAGGTGGTGGACCGGTGTGACTGC
CTGCCCCATCATGCCCTGGCCAGGGTGGCTGCTGTCACCTTGGCCACCACTGCTCATGTCCCCA
GTGTTTACACATCCTTTGGATGCCAAGACAGCAGCTGGGGGTGGAAAAGTGATGGGGGTGGGGG
GGAGGTGCGTGGGGGTGGGGCATGGGGCGGCAGTGTCCAAAGCACTTTGGAGGAGGTCTCAGGC
CATGTCCCCAGAGGCCTTCCAGGCTTCATTATCCCTCATGCTCTGCCCTGAGCTGTTTCACTAC
GGGATAAGAGGTTTTGTTTCCACACCCCACCTGTTCCCCTCCAGCCTCATGACCAGTGTTCCTG
ACCCCAGAACAGACCCTAGCCTCTTGCCCAGGCAAATCTGTATCTTCCTGCTCCGGACAAGGTG
AGGGCCCCGGGGGCTGTACAGTGTTACTTGTTGGACTGCACCACTCAGCCCTGTTTATTTGTGT
AATTATTTTTTTAAAAAATTGTATTACCTGTGGTTGCCACCCCCCTGCCCCAGCCTTGGGTCCA
GTCTGTCTTCCAGGCCTGCCTGCACCTCACTTGGCTGCTCCAGGGTCCCTTGTCCTTTGTTCCA
ATCCTGGTTGTCAGGCCCAGCCAGCAAAGGCCACGACCCAGCAGCCTGCCCAAAGCACTTGTTT
ATGGAGGGAAAGAAGGGGACTTATCTGTAGGAAGCTTGAGCCCAGAGCCCTGGGGAAGGGGACC
CTGCACAACATTCCCTTGCCCACCCTCCACCAGGTTGAAGGCCCAGTCTTCCCAGACGTGCTAA
CCCTATTCAATGTGCCAAATGGCCCCAGTCCACGTGCCTGTCCCCCCCTCTGCAGTCAGAGCAC
CTTCTCCCAAGACCTGCAGTCCGTGTGTCCGTCCTCTGTGCCCTCTGCAGTGACAGCCCTGGCC
AAGCCCCTTCTAATCCTCTGTAGCAATAACGGTGTGCCGCCCGCCGCTGCCCAGCGTGCAGCAC
TCGGGTTTTAAAGTCCGTAGGTTTTAATGAAATTTCTATTCCTGTCAAAACAAAAAAAAAAAAA
AAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006238625 ⟹ XP_006238687

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	131,388,571 - 131,408,733 (+)	NCBI
Rnor_6.0	5	136,683,486 - 136,703,702 (+)	NCBI
Rnor_5.0	5	140,458,723 - 140,492,751 (+)	NCBI

Sequence:

show sequence

GGTAGGCTGAACTTGGGGAGGAGATGAGGTGAAAGTAATTGACGCTGCCCAGCCCGGCAGTGGG
AGAGGCAGGGGATGTGTCGTCAGTGTCAGTGTCAGTGTCGTTCTGGAGCTGGCAGAGGTGTGAA
TGAGCGGCTGAGACACTCGTGCTTTTAGTGCTCTTCCCAGGATGGCTGTGGCTCACGGACCTGT
GGCCACCTCTTCCCCAGAACAGAATGGTGCTGTGCCCAGCGAGGCCACCAAGAAGGACCAGAAC
CTCACACGGGGCAACTGGGGCAACCAGATCGAGTTTGTACTGACGAGCGTGGGCTATGCCGTGG
GCCTGGGCAATGTGTGGCGTTTCCCATACCTCTGCTATCGCAACGGGGGAGGCGCCTTCATGTT
TCCCTACTTCATCATGCTGGTCTTCTGCGGCATTCCTCTCTTCTTCATGGAGCTCTCCTTCGGC
CAGTTTGCAAGCCAGGGCTGCCTGGGGGTCTGGAGGATCAGCCCCATGTTCAAAGGCGTGGGCT
ATGGTATGATGGTGGTGTCCACGTACATCGGTATCTACTACAACGTGGTCATCTGCATCGCCTT
CTACTACTTCTTCTCGTCCATGACGCATGTGCTGCCCTGGGCTTACTGCAATAATCCCTGGAAC
ACACCTGACTGTGCCGGTGTGCTGGATGCTTCCAATCTCACCAATGGCTCCCGGCCCACTGCCC
TGTCTGGCAACCTGTCTCACCTGTTCAACTACACCTTGCAAAGGACCAGCCCCAGTGAGGAGTA
CTGGAGGCTGTATGTGCTGAAGCTGTCGGATGACATTGGAGATTTTGGAGAAGTGCGGCTTCCT
CTCCTAGGCTGCCTTGGCGTCTCCTGGGTGGTTGTCTTCCTCTGCCTCATTCGAGGAGTCAAGT
CTTCAGGGAAAGTGGTGTACTTCACGGCCACATTTCCCTATGTGGTGCTGACCATTCTGTTTGT
TCGTGGAGTGACCCTGGAAGGAGCCTTCACGGGTATCATGTACTACCTGACCCCAAAGTGGGAC
AAGATCCTGGAGGCCAAGGTGTGGGGGGATGCAGCCTCTCAGATCTTCTATTCCCTGGGCTGTG
CATGGGGTGGCCTCATCACCATGGCATCCTACAACAAATTCCACAACAACTGCTACCGGGACAG
CGTCATCATCAGCATCACCAATTGTGCTACCAGTGTCTATGCTGGCTTCGTCATCTTCTCTATC
CTAGGCTTCATGGCCAATCACCTGGGTGTGGATGTGTCTCGGGTGGCAGACCACGGGCCCGGGC
TAGCTTTCGTGGCTTACCCCGAGGCTCTCACACTGCTTCCCATCTCCCCGCTCTGGTCCTTGCT
GTTTTTCTTCATGCTCATCCTGCTGGGACTCGGTACTCAGTTCTGCCTCCTGGAGACCCTAGTC
ACTGCCATTGTGGATGAGGTGGGGAATGAGTGGATTCTGCAGAAGAAGACCTACGTGACCTTGG
GTGTGGCTGTGGCTGGCTTCTTGCTGGGTATCCCTCTTACCAGCCAGGCGGGCATCTACTGGCT
GCTGTTGATGGACAACTACGCAGCCAGCTTCTCCTTGGTTGTCATCTCCTGCATCATGTGCGTG
TCCATCATGTATATCTATGGGCACCGGAACTACTTCCAGGACATTCAGATGATGCTGGGGTTCC
CACCGCCTCTCTTCTTCCAGATCTGTTGGCGTTTTGTCTCTCCCACTATCATCTTTTTCATTCT
CATCTTCACGGTGATCCAGTACCGGCCAATCACTTACAACCACTACCAGTACCCAGGCTGGGCT
GTGGCCATCGGCTTCCTCATGGCTTTGTCGTCTGTCATCTGCATCCCATTGTACGCATTGTTCC
AGCTCTGCCGCACAGATGGGGACACACTTCTTCAGCGTTTGAAAAATGCCACAAAGCCAAGCAG
AGACTGGGGCCCTGCCCTCCTGGAGCACCGGACTGGGCGCTATGCCCCCACTACAACCCCCTCT
CCTGAAGATGGGTTTGAGGTTCAGCCACTGCACCCGGACAAGGCCCAGATCCCCATCGTGGGCA
GTAACGGCTCCAGCCGCCTCCAGGACTCCCGGATATGAGCACAGTTGTTGCAAGGGGAGAAGCC
CCACCCAACCCTTGCTCCTACCACAGAGACTGAGGAGGTGGTGGACCGGTGTGACTGCCTGCCC
CATCATGCCCTGGCCAGGGTGGCTGCTGTCACCTTGGCCACCACTGCTCATGTCCCCAGTGTTT
ACACATCCTTTGGATGCCAAGACAGCAGCTGGGGGTGGAAAAGTGATGGGGGTGGGGGGGAGGT
GCGTGGGGGTGGGGCATGGGGCGGCAGTGTCCAAAGCACTTTGGAGGAGGTCTCAGGCCATGTC
CCCAGAGGCCTTCCAGGCTTCATTATCCCTCATGCTCTGCCCTGAGCTGTTTCACTACGGGATA
AGAGGTTTTGTTTCCACACCCCACCTGTTCCCCTCCAGCCTCATGACCAGTGTTCCTGACCCCA
GAACAGACCCTAGCCTCTTGCCCAGGCAAATCTGTATCTTCCTGCTCCGGACAAGGTGAGGGCC
CCGGGGGCTGTACAGTGTTACTTGTTGGACTGCACCACTCAGCCCTGTTTATTTGTGTAATTAT
TTTTTTAAAAAATTGTATTACCTGTGGTTGCCACCCCCCTGCCCCAGCCTTGGGTCCAGTCTGT
CTTCCAGGCCTGCCTGCACCTCACTTGGCTGCTCCAGGGTCCCTTGTCCTTTGTTCCAATCCTG
GTTGTCAGGCCCAGCCAGCAAAGGCCACGACCCAGCAGCCTGCCCAAAGCACTTGTTTATGGAG
GGAAAGAAGGGGACTTATCTGTAGGAAGCTTGAGCCCAGAGCCCTGGGGAAGGGGACCCTGCAC
AACATTCCCTTGCCCACCCTCCACCAGGTTGAAGGCCCAGTCTTCCCAGACGTGCTAACCCTAT
TCAATGTGCCAAATGGCCCCAGTCCACGTGCCTGTCCCCCCCTCTGCAGTCAGAGCACCTTCTC
CCAAGACCTGCAGTCCGTGTGTCCGTCCTCTGTGCCCTCTGCAGTGACAGCCCTGGCCAAGCCC
CTTCTAATCCTCTGTAGCAATAACGGTGTGCCGCCCGCCGCTGCCCAGCGTGCAGCACTCGGGT
TTTAAAGTCCGTAGGTTTTAATGAAATTTCTATTCCTGTCTCTGA

hide sequence

RefSeq Acc Id:

XM_039109142 ⟹ XP_038965070

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	131,374,562 - 131,408,733 (+)	NCBI

RefSeq Acc Id:

XM_039109143 ⟹ XP_038965071

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	131,388,582 - 131,408,733 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_446270	(Get FASTA)	NCBI Sequence Viewer
	XP_006238687	(Get FASTA)	NCBI Sequence Viewer
	XP_038965070	(Get FASTA)	NCBI Sequence Viewer
	XP_038965071	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA41256	(Get FASTA)	NCBI Sequence Viewer
	AAA41257	(Get FASTA)	NCBI Sequence Viewer
	AAA73557	(Get FASTA)	NCBI Sequence Viewer
	AAC71066	(Get FASTA)	NCBI Sequence Viewer
	AAC71067	(Get FASTA)	NCBI Sequence Viewer
	AAI28733	(Get FASTA)	NCBI Sequence Viewer
	EDL90208	(Get FASTA)	NCBI Sequence Viewer
	P28572	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_446270 ⟸ NM_053818

- UniProtKB:

P28572 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MVGKGAKGMLNGAVPSEATKKDQNLTRGNWGNQIEFVLTSVGYAVGLGNVWRFPYLCYRNGGGA
FMFPYFIMLVFCGIPLFFMELSFGQFASQGCLGVWRISPMFKGVGYGMMVVSTYIGIYYNVVIC
IAFYYFFSSMTHVLPWAYCNNPWNTPDCAGVLDASNLTNGSRPTALSGNLSHLFNYTLQRTSPS
EEYWRLYVLKLSDDIGDFGEVRLPLLGCLGVSWVVVFLCLIRGVKSSGKVVYFTATFPYVVLTI
LFVRGVTLEGAFTGIMYYLTPKWDKILEAKVWGDAASQIFYSLGCAWGGLITMASYNKFHNNCY
RDSVIISITNCATSVYAGFVIFSILGFMANHLGVDVSRVADHGPGLAFVAYPEALTLLPISPLW
SLLFFFMLILLGLGTQFCLLETLVTAIVDEVGNEWILQKKTYVTLGVAVAGFLLGIPLTSQAGI
YWLLLMDNYAASFSLVVISCIMCVSIMYIYGHRNYFQDIQMMLGFPPPLFFQICWRFVSPTIIF
FILIFTVIQYRPITYNHYQYPGWAVAIGFLMALSSVICIPLYALFQLCRTDGDTLLQRLKNATK
PSRDWGPALLEHRTGRYAPTTTPSPEDGFEVQPLHPDKAQIPIVGSNGSSRLQDSRI

hide sequence

RefSeq Acc Id:	XP_006238687 ⟸ XM_006238625
- Peptide Label:	isoform X1
- UniProtKB:	P28572 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MAVAHGPVATSSPEQNGAVPSEATKKDQNLTRGNWGNQIEFVLTSVGYAVGLGNVWRFPYLCYR NGGGAFMFPYFIMLVFCGIPLFFMELSFGQFASQGCLGVWRISPMFKGVGYGMMVVSTYIGIYY NVVICIAFYYFFSSMTHVLPWAYCNNPWNTPDCAGVLDASNLTNGSRPTALSGNLSHLFNYTLQ RTSPSEEYWRLYVLKLSDDIGDFGEVRLPLLGCLGVSWVVVFLCLIRGVKSSGKVVYFTATFPY VVLTILFVRGVTLEGAFTGIMYYLTPKWDKILEAKVWGDAASQIFYSLGCAWGGLITMASYNKF HNNCYRDSVIISITNCATSVYAGFVIFSILGFMANHLGVDVSRVADHGPGLAFVAYPEALTLLP ISPLWSLLFFFMLILLGLGTQFCLLETLVTAIVDEVGNEWILQKKTYVTLGVAVAGFLLGIPLT SQAGIYWLLLMDNYAASFSLVVISCIMCVSIMYIYGHRNYFQDIQMMLGFPPPLFFQICWRFVS PTIIFFILIFTVIQYRPITYNHYQYPGWAVAIGFLMALSSVICIPLYALFQLCRTDGDTLLQRL KNATKPSRDWGPALLEHRTGRYAPTTTPSPEDGFEVQPLHPDKAQIPIVGSNGSSRLQDSRI hide sequence

RefSeq Acc Id:

ENSRNOP00000070161 ⟸ ENSRNOT00000085527

RefSeq Acc Id:

ENSRNOP00000040252 ⟸ ENSRNOT00000048770

RefSeq Acc Id:	XP_038965070 ⟸ XM_039109142
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038965071 ⟸ XM_039109143
- Peptide Label:	isoform X2

Transcriptome

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

Promoters

RGD ID:

13693956

Promoter ID:

EPDNEW_R4481

Type:

initiation region

Name:

Slc6a9_1

Description:

solute carrier family 6 member 9

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	5	136,669,707 - 136,669,767	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:621243	AgrOrtholog
Ensembl Genes	ENSRNOG00000019484	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000040252	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000070161	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000048770	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000085527	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:8364347	IMAGE-MGC_LOAD
InterPro	Na/ntran_symport	UniProtKB/Swiss-Prot
	Na/ntran_symport_glycine_GLY1	UniProtKB/Swiss-Prot
	SNS_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:116509	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:156610	IMAGE-MGC_LOAD
NCBI Gene	116509	ENTREZGENE
PANTHER	PTHR11616	UniProtKB/Swiss-Prot
Pfam	SNF	UniProtKB/Swiss-Prot
PhenoGen	Slc6a9	PhenoGen
PRINTS	GLY1TRNSPORT	UniProtKB/Swiss-Prot
	NANEUSMPORT	UniProtKB/Swiss-Prot
PROSITE	NA_NEUROTRAN_SYMP_1	UniProtKB/Swiss-Prot
	NA_NEUROTRAN_SYMP_2	UniProtKB/Swiss-Prot
	NA_NEUROTRAN_SYMP_3	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF161070	UniProtKB/Swiss-Prot
UniProt	P28572	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	A1A5N0	UniProtKB/Swiss-Prot
	Q63322	UniProtKB/Swiss-Prot
	Q63323	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-24	Slc6a9	solute carrier family 6 member 9	Slc6a9	solute carrier family 6 (neurotransmitter transporter, glycine), member 9	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-09-10	Slc6a9	solute carrier family 6 (neurotransmitter transporter, glycine), member 9	Glyt1	glycine transporter 1	Symbol and Name updated	1299863	APPROVED
2002-08-07	Glyt1	glycine transporter 1			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_drugs	transport blocked by sarcosine but is not blocked by methyl-aminoisobutyric acid or L-alanine	632884
gene_protein	633 amino acids with a molecular mass of approximately 70 kDA	632884

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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