Sntb1 (syntrophin, beta 1) - Rat Genome Database

Name: Sntb1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Sntb1 (syntrophin, beta 1) Rattus norvegicus

Analyze

Symbol:

Sntb1

Name:

syntrophin, beta 1

RGD ID:

1307728

Description:

Enables PDZ domain binding activity. Predicted to be located in anchoring junction and cytoskeleton. Predicted to be part of dystrophin-associated glycoprotein complex. Predicted to be active in synapse. Orthologous to human SNTB1 (syntrophin beta 1); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; amiodarone pharmacodynamics pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,4-methylenedioxymethamphetamine.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

beta-1-syntrophin; LOC299940; syntrophin, basic 1

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SNTB1 (syntrophin beta 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Sntb1 (syntrophin, basic 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Sntb1 (syntrophin beta 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SNTB1 (syntrophin beta 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SNTB1 (syntrophin beta 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sntb1 (syntrophin beta 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SNTB1 (syntrophin beta 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SNTB1 (syntrophin beta 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sntb1 (syntrophin beta 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SNTB1 (syntrophin beta 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Sntb1 (syntrophin, basic 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	sntb1 (syntrophin, basic 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Syn1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	stn-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	sntb1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	87,060,926 - 87,329,315 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	87,060,926 - 87,329,315 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	88,942,750 - 89,211,066 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	7	91,143,964 - 91,412,302 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	7	90,949,316 - 91,217,722 (-)	NCBI	Rnor_WKY
Rnor_6.0	7	95,395,417 - 95,670,093 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	95,397,113 - 95,669,809 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	96,019,799 - 96,286,153 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	92,156,715 - 92,426,444 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	92,191,431 - 92,460,727 (-)	NCBI
Celera	7	83,854,036 - 84,122,727 (-)	NCBI		Celera
Cytogenetic Map	7	q32	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)

head and neck squamous cell carcinoma (ISO)

trichorhinophalangeal syndrome type I (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

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

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP,ISO)

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

2,4-dibromophenyl 2,4,5-tribromophenyl ether (ISO)

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

3,4-methylenedioxymethamphetamine (EXP)

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

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

5-fluorouracil (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

acrylamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amphetamine (EXP)

aristolochic acid A (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

bisphenol A (EXP,ISO)

Bisphenol B (ISO)

bisphenol F (ISO)

bromobenzene (EXP)

butanal (ISO)

caffeine (ISO)

calcitriol (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chrysene (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

dibutyl phthalate (ISO)

dioxygen (ISO)

doxorubicin (ISO)

epoxiconazole (ISO)

fulvestrant (ISO)

furan (EXP)

indole-3-methanol (EXP)

inulin (ISO)

leflunomide (ISO)

melphalan (ISO)

menadione (ISO)

N-nitrosodiethylamine (EXP)

O-methyleugenol (ISO)

paraquat (EXP)

perfluorononanoic acid (ISO)

perfluorooctane-1-sulfonic acid (ISO)

phenformin (EXP)

pirinixic acid (ISO)

quercetin (ISO)

rotenone (EXP)

silicon dioxide (ISO)

sodium arsenite (ISO)

sunitinib (ISO)

temozolomide (ISO)

tetraphene (ISO)

thioacetamide (EXP)

triazines (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

triclosan (ISO)

triptonide (ISO)

tunicamycin (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Cellular Component

anchoring junction (IEA)

cytoskeleton (IEA)

dystrophin-associated glycoprotein complex (IBA)

protein-containing complex (ISO)

synapse (IBA,ISO)

Molecular Function

PDZ domain binding (IPI)

protein binding (ISO)

structural molecule activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

acebutolol pharmacodynamics pathway (ISO)

adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway (ISO)

amiodarone pharmacodynamics pathway (ISO)

amlodipine pharmacodynamics pathway (ISO)

atenolol pharmacodynamics pathway (ISO)

betaxolol pharmacodynamics pathway (ISO)

bisoprolol pharmacodynamics pathway (ISO)

bupranolol drug pathway (ISO)

bupranolol pharmacodynamics pathway (ISO)

carvedilol pharmacodynamics pathway (ISO)

diltiazem pharmacodynamics pathway (ISO)

disopyramide pharmacodynamics pathway (ISO)

dobutamine pharmacodynamics pathway (ISO)

esmolol pharmacodynamics pathway (ISO)

flecainde pharmacodynamics pathway (ISO)

fosphenytoin pharmacodynamics pathway (ISO)

fosphenytoin pharmacokinetics pathway (ISO)

ibutilide pharmacodynamics pathway (ISO)

isoprenaline pharmacodynamics pathway (ISO)

isradipine pharmacodynamics pathway (ISO)

levobunolol pharmacodynamics pathway (ISO)

lidocaine pharmacodynamics pathway (ISO)

metoprolol pharmacodynamics pathway (ISO)

mexiletine pharmacodynamics pathway (ISO)

nadolol pharmacodynamics pathway (ISO)

nebivolol pharmacodynamics pathway (ISO)

nifedipine pharmacodynamics pathway (ISO)

nimodipine pharmacodynamics pathway (ISO)

nisoldipine pharmacodynamics pathway (ISO)

nitrendipine pharmacodynamics pathway (ISO)

penbutolol pharmacodynamics pathway (ISO)

phenytoin pharmacodynamics pathway (ISO)

pindolol pharmacodynamics pathway (ISO)

procainamide pharmacodynamics pathway (ISO)

propranolol pharmacodynamics pathway (ISO)

quinidine pharmacodynamics pathway (ISO)

sotalol pharmacodynamics pathway (ISO)

timolol pharmacodynamics pathway (ISO)

verapamil pharmacodynamics pathway (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.	Protein trafficking and anchoring complexes revealed by proteomic analysis of inward rectifier potassium channel (Kir2.x)-associated proteins.	Leonoudakis D, etal., J Biol Chem. 2004 May 21;279(21):22331-46. Epub 2004 Mar 15.
4.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	SMPDB Annotation Import Pipeline	Pipeline to import SMPDB annotations from SMPDB into RGD
6.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:10995443	PMID:17728463	PMID:18468998	PMID:21423176	PMID:25931508	PMID:28755400

Genomics

Comparative Map Data

Sntb1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	7	87,060,926 - 87,329,315 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	87,060,926 - 87,329,315 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	88,942,750 - 89,211,066 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	7	91,143,964 - 91,412,302 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	7	90,949,316 - 91,217,722 (-)	NCBI	Rnor_WKY
Rnor_6.0	7	95,395,417 - 95,670,093 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	95,397,113 - 95,669,809 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	96,019,799 - 96,286,153 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	92,156,715 - 92,426,444 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	92,191,431 - 92,460,727 (-)	NCBI
Celera	7	83,854,036 - 84,122,727 (-)	NCBI		Celera
Cytogenetic Map	7	q32	NCBI

SNTB1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	120,535,756 - 120,812,046 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	8	120,535,745 - 120,813,273 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	121,547,996 - 121,824,286 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	121,619,226 - 121,893,910 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	8	121,619,225 - 121,893,910	NCBI
Celera	8	117,736,336 - 118,012,396 (-)	NCBI		Celera
Cytogenetic Map	8	q24.12	NCBI
HuRef	8	116,868,352 - 117,146,047 (-)	NCBI		HuRef
CHM1_1	8	121,588,485 - 121,864,687 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	8	121,664,208 - 121,941,521 (-)	NCBI		T2T-CHM13v2.0

Sntb1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	55,499,784 - 55,770,707 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	55,499,784 - 55,770,345 (-)	Ensembl		GRCm39 Ensembl
GRCm38	15	55,636,388 - 55,907,302 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	55,636,388 - 55,906,949 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	55,470,709 - 55,738,504 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	15	55,469,237 - 55,737,032 (-)	NCBI		MGSCv36	mm8
Celera	15	57,171,449 - 57,431,827 (-)	NCBI		Celera
Cytogenetic Map	15	D1	NCBI
cM Map	15	22.14	NCBI

Sntb1
(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_004955417	25,904,654 - 26,128,134 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955417	25,906,013 - 26,128,134 (-)	NCBI	ChiLan1.0	ChiLan1.0

SNTB1
(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	8	113,472,375 - 113,748,920 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	8	117,225,128 - 117,501,899 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	8	119,993,019 - 120,269,695 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	119,996,149 - 120,268,188 (-)	Ensembl	panpan1.1		panPan2

SNTB1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	13	19,394,608 - 19,627,278 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	13	19,397,509 - 19,627,403 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	13	19,407,106 - 19,639,472 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	13	19,720,168 - 19,953,167 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	13	19,720,329 - 19,953,343 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	13	19,450,834 - 19,689,839 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	13	19,550,680 - 19,782,989 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	13	19,783,841 - 20,016,508 (-)	NCBI		UU_Cfam_GSD_1.0

Sntb1
(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_024405303	18,647,963 - 18,875,715 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936470	26,073,520 - 26,303,113 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936470	26,074,175 - 26,301,076 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SNTB1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	18,288,843 - 18,526,215 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	18,288,756 - 18,524,362 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	19,416,987 - 19,549,147 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SNTB1
(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	8	115,117,224 - 115,391,475 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	115,117,756 - 115,391,537 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666039	24,883,597 - 25,162,844 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sntb1
(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_004624763	18,309,172 - 18,529,151 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624763	18,310,253 - 18,528,845 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Sntb1
1259 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	71
Count of miRNA genes:	62
Interacting mature miRNAs:	68
Transcripts:	ENSRNOT00000006423
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
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	924703	115097879	Rat
1643004	Pain2	Pain QTL 2	1		mechanical nociception trait (VT:0002734)	self mutilation severity score (CMO:0002145)	7	9462246	98011544	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	41333674	119109060	Rat
634326	Hc3	Hypercalciuria QTL 3	2.1		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	7	42787314	87787314	Rat
10053722	Scort27	Serum corticosterone level QTL 27	2.41	0.0083	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	7	43228750	88228750	Rat
1358361	Sradr5	Stress Responsive Adrenal Weight QTL 5	5.55		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	7	43747012	108555253	Rat
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	43747012	135012528	Rat
1300149	Cm6	Cardiac mass QTL 6	4.09		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	7	43747099	102228765	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	44421311	118198041	Rat
61428	Scl3	Serum cholesterol level QTL 3	3.2		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	44867533	89867533	Rat
738030	Anxrr8	Anxiety related response QTL 8	4.1		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	46590070	91590070	Rat
2293696	Bmd32	Bone mineral density QTL 32	5.1	0.0001	femur strength trait (VT:0010010)	femoral neck polar moment of inertia (CMO:0001670)	7	47651439	92651439	Rat
2293707	Bss32	Bone structure and strength QTL 32	7.64	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	7	47651439	92651439	Rat
2300178	Bmd54	Bone mineral density QTL 54	5.3	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	7	47651439	92651439	Rat
2293644	Bmd29	Bone mineral density QTL 29	5.4	0.0001	femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	7	47651439	92651439	Rat
2293667	Bss42	Bone structure and strength QTL 42	7.25	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	7	47651439	92651439	Rat
2293678	Bss24	Bone structure and strength QTL 24	6.71	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	7	47651439	92651439	Rat
2293685	Bmd21	Bone mineral density QTL 21	4.2	0.0003	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	7	47651439	92651439	Rat
1300151	Bp181	Blood pressure QTL 181	3.36		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	7	53612714	103945643	Rat
2317035	Aia16	Adjuvant induced arthritis QTL 16	2.71		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	7	59238038	104238038	Rat
1298528	Bp169	Blood pressure QTL 169		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	61074194	106074194	Rat
1559283	Emca4	Estrogen-induced mammary cancer QTL 4	3.7		mammary gland integrity trait (VT:0010552)	percentage of study population developing mammary tumors during a period of time (CMO:0000948)	7	62004452	101773158	Rat
1576303	Ept7	Estrogen-induced pituitary tumorigenesis QTL 7	3.7		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	7	62004452	101773158	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	64002457	135012528	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	68938720	113886318	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	68938720	113886318	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	68938720	113886318	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	69736226	117455174	Rat
1357338	Stl17	Serum triglyceride level QTL 17	3.23		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	69736356	112729554	Rat
634331	Pia17	Pristane induced arthritis QTL 17	4.7		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	7	73829340	130221005	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
724537	Niddm52	Non-insulin dependent diabetes mellitus QTL 52		0.02	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	80221299	93595843	Rat
1641908	Teswt1	Testicular weight QTL 1	3.28		testis mass (VT:1000644)	both testes wet weight (CMO:0000175)	7	80221299	94811326	Rat
631529	Tls2	T-lymphoma susceptibility QTL 2	0	0.001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	7	80221299	109401111	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	80221299	112308525	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	80221299	124373579	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	80221299	125221299	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	81737938	126737938	Rat
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	83153392	128153392	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
71114	Niddm14	Non-insulin dependent diabetes mellitus QTL 14	4.5		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	7	84257275	129257275	Rat
2298475	Eau6	Experimental allergic uveoretinitis QTL 6		0.0029	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	7	84257275	129257275	Rat
1558655	Swd4	Spike wave discharge measurement QTL 4	3.68	0.0002	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge severity grade (CMO:0001988)	7	86983365	131983365	Rat

Markers in Region

D7Got65

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	7	95,642,328 - 95,642,476	NCBI	Rnor6.0
Rnor_5.0	7	96,259,336 - 96,259,484	UniSTS	Rnor5.0
RH 3.4 Map	7	610.2	RGD
RH 3.4 Map	7	610.2	UniSTS
Cytogenetic Map	7	q32	UniSTS

UniSTS:224712

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	87,301,777 - 87,301,932 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	95,642,042 - 95,642,196	NCBI	Rnor6.0
Rnor_5.0	7	96,259,050 - 96,259,204	UniSTS	Rnor5.0
Cytogenetic Map	7	q32	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		16	26	17	10	17	8	8			6	11	8
Low	3	21	31	24	9	24		3	74	35	35
Below cutoff		6

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001130542	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017594754	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000185	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000006423 ⟹ ENSRNOP00000006423

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	87,060,926 - 87,329,315 (-)	Ensembl
Rnor_6.0 Ensembl	7	95,397,113 - 95,669,809 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000100092 ⟹ ENSRNOP00000096588

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	87,063,860 - 87,329,315 (-)	Ensembl

RefSeq Acc Id:

NM_001130542 ⟹ NP_001124014

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	7	87,060,926 - 87,329,315 (-)	NCBI
Rnor_6.0	7	95,397,776 - 95,669,775 (-)	NCBI
Rnor_5.0	7	96,019,799 - 96,286,153 (-)	NCBI
RGSC_v3.4	7	92,156,715 - 92,426,444 (-)	RGD
Celera	7	83,854,036 - 84,122,727 (-)	RGD

Sequence:

show sequence

GCAGTGGCGAACAGGTGAGCGGCTGGGGCTCCGGGTCCCCGCCCCTGCCTCCTCCTACCGGTTC
TCAATAGCACTTGGCCGCTCCGCGGCTCCTCTCGGTTTGGGGTTTTGCAACTGGCAGCTGGCTT
TTTTCCCTCCTCCCCTGTCGAGGGCTCTCCTTCTTCTTTTAGGTTGCTCCACCCCGCCCAGGAT
CAGGCGAGGGGGGAACAAGCTCCGCCGCTGCCAACTGGCGCCCAGTGCAGCCGCGAACACGGGG
AGTGGAGTCCGGGATCCAAGAGCGCGCTGCGGGGCATCTGCTTCTTCCACGCCCCAGCTACCCC
GAGTCCTCTCACCCTCACCCCTTCTCCACTTTTCCCCCGTTTGCAATCACATGGCATTTTAAGA
ATGCTGGAAAGATGGCGGTAGCGGCAGCGGCAGCGGCTGTGGCTGCGCCGGCTGGCGGTGGAGG
CGCCCGGGCGCAGCGGAGCGGACTGTTGGAAGTTTTGGTGCGGGATCGCTGGCATAAAGTTCTG
GTGAACTTGAGCGAGGACGCCCTGGTGTTGAGCTGCGAGGAGGGCGCTACGGCGTACAACGGCA
TAGGGACTACCACCAATGGTTCGTTCTGCAGGGGCTCCGGGACCGGGCACCCGGGCACTGGTGT
GCCTCAAGCCCCGGACTCTCCTGCCGGGGTCCGCACCGCCTTCACCGACCTGCCAGAGCAGGTG
CCTGAGTCCATCTCAAACCAGAAGAGGGGCGTGAAGGTCCTGAAGCAGGAGCTGGGCGGGCTGG
GCATTAGCATCAAAGGGGGCAAGGAAAACAAGATGCCCATACTCATCAGCAAGATCTTCAAGGG
GCTGGCAGCCGATCAGACCCAAGCCCTGTACGTGGGCGATGCCATCCTGTCAGTGAATGGAGCA
GACCTGCGGGACGCCACCCACGACGAGGCAGTACAGGCGCTGAAGCGCGCAGGCAAGGAAGTGC
TGCTGGAAGTGAAGTACATGAGAGAAGCCACACCTTACGTGAAGAAAGGATCCCCTGTGTCTGA
GATTGGATGGGAAACACCTCCACCTGAGTCCCCAAGATTAGGGAGTGGCTCTGCAGATCCTCTG
TCATCCCAGCCCTTCTCCTTCCATAGAGACCGGAAAAGCATCCCCCTCAAGATGTGTTATGTCA
CCCGGAGCATGACTTTGGCTGACCCTGAAAACAGGCAGCTTGAAATTCACTCGCCAGATGCTAA
GCACACAGTGGTCCTGAGGAGTAAGGACTCTGCCACTGCCCAAGCCTGGTTCAGTGCTATCCAT
TCCAACGTTGGTGACTTGCTGGTCCGTGTGGTTGCTGACATCAGGGAGCAGCTGGGGAAGACAG
GTATTGCTGGCAGTCGTGAGATCAGGCATCTTGGCTGGCTTGCAGAAAAGGTACCTGGAGAGAG
TGAGAAACAGTGGAAACCAGCCCTGGTTGTTCTGACTGAGAAGGATCTTCTAATCTATGACAGC
ATGCCGCGGAGGAAAGAGGCCTGGCTTAGCCCAGTACATTCGTACCCACTTCTTGCCACCAGGT
TGGTCCATTCGGGCCCAGGGAAAGGATCACCTCAGGCTGCTATGGACCTGTCCTTTGCAACTCG
AACTGGTACCAAGCAAGGAATTGAAACACATCTCTTCAGGGCAGAGATCAGCAGGGACCTCTCC
CACTGGACAAGGAGCATAGTACAGGGGTGCCACAATTCAGCAGAGCTCACTGCTGAAATCACCA
CCGCCTGCACCTACAGAAACCAGGAATGCCGCTTGACCATACATTACGACAATGGATTTTCTAT
TTCCACTGAGCCTCAGGATGGTGCCTTTCCCAAGACAATCATACAGTCCCCTTATGAGAAGCTC
AAAATGTCTTCGGATGATGGAATCAGGATGCTCTATTTAGACTTTGGAGGCAAAGAAGGAGAGA
TTCAACTGGACCTTCACTCCTGCCCCAAGCCCATCGTTTTCATCATCCATTCCTTTCTGTCTGC
TAAGATCACACGACTGGGCTTGGTGGCCTGAACAGAGGGGCGACTTGCCTTAGGAAAGGAAGCC
TGCCGTGCCTCAGGACTGTGACATCGGGCAGTGCACCAGATGTAGCATGCACAGCCAGCTGCAG
GTTTCAGGAGTCACATGTACCATCATCCCAGGCTCCTCCATCGGTTTCAGAAACTCCAAGGGAC
ACCCTAAAGAAAACACCACAGGGGTTTTATCAGAATAAAATTTCATAGAATAGAACAAAGAGGT
GAGGGTGGGTGAATATGCAGAGCATATCTCTAAAATTATGACAACCAAGGACACAGCCATTACA
GCAGCACAGGAAGATCTTAATCAGTCCAGTCTCTAGGCAACTGGTTCGCCCAGGTAAGCCAGAG
CCAAGCCGATGAGAAACAACTAGCTACACCTTTTCCTCTGCCCCTAGTAACAGCCTCTTGCTTT
CCTGTGATTATTTCCCGATTCAAGTTGAGCTAACTATCCTTGGTAGGAACAACAACAATGCACA
CCTTTT

hide sequence

Protein Sequences


Protein RefSeqs	NP_001124014	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM16244	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001124014 ⟸ NM_001130542

- UniProtKB:

D3ZWC6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAVAAAAAAVAAPAGGGGARAQRSGLLEVLVRDRWHKVLVNLSEDALVLSCEEGATAYNGIGTT
TNGSFCRGSGTGHPGTGVPQAPDSPAGVRTAFTDLPEQVPESISNQKRGVKVLKQELGGLGISI
KGGKENKMPILISKIFKGLAADQTQALYVGDAILSVNGADLRDATHDEAVQALKRAGKEVLLEV
KYMREATPYVKKGSPVSEIGWETPPPESPRLGSGSADPLSSQPFSFHRDRKSIPLKMCYVTRSM
TLADPENRQLEIHSPDAKHTVVLRSKDSATAQAWFSAIHSNVGDLLVRVVADIREQLGKTGIAG
SREIRHLGWLAEKVPGESEKQWKPALVVLTEKDLLIYDSMPRRKEAWLSPVHSYPLLATRLVHS
GPGKGSPQAAMDLSFATRTGTKQGIETHLFRAEISRDLSHWTRSIVQGCHNSAELTAEITTACT
YRNQECRLTIHYDNGFSISTEPQDGAFPKTIIQSPYEKLKMSSDDGIRMLYLDFGGKEGEIQLD
LHSCPKPIVFIIHSFLSAKITRLGLVA

hide sequence

RefSeq Acc Id:

ENSRNOP00000006423 ⟸ ENSRNOT00000006423

RefSeq Acc Id:

ENSRNOP00000096588 ⟸ ENSRNOT00000100092

Protein Domains

PDZ PH

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZWC6-F1-model_v2	AlphaFold	D3ZWC6	1-539	view protein structure

Transcriptome

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

Promoters

RGD ID:

13695338

Promoter ID:

EPDNEW_R5862

Type:

single initiation site

Name:

Sntb1_1

Description:

syntrophin, beta 1

SO ACC ID:

SO:0000170

Source:

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

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	7	95,669,540 - 95,669,600	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1307728	AgrOrtholog
BioCyc Gene	G2FUF-33368	BioCyc
Ensembl Genes	ENSRNOG00000004821	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000006423	ENTREZGENE
	ENSRNOP00000006423.4	UniProtKB/TrEMBL
	ENSRNOP00000096588.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000006423	ENTREZGENE
	ENSRNOT00000006423.6	UniProtKB/TrEMBL
	ENSRNOT00000100092.1	UniProtKB/TrEMBL
Gene3D-CATH	2.30.29.30	UniProtKB/TrEMBL
	2.30.42.10	UniProtKB/TrEMBL
InterPro	PDZ/DHR/GLGF	UniProtKB/TrEMBL
	PDZ_sf	UniProtKB/TrEMBL
	PH_type	UniProtKB/TrEMBL
	PHsplit_syntrophin	UniProtKB/TrEMBL
	Pleckstrin_homology	UniProtKB/TrEMBL
	Syntrophin	UniProtKB/TrEMBL
KEGG Report	rno:299940	UniProtKB/TrEMBL
NCBI Gene	299940	ENTREZGENE
PANTHER	BETA-1-SYNTROPHIN	UniProtKB/TrEMBL
	Syntrophin	UniProtKB/TrEMBL
Pfam	PDZ	UniProtKB/TrEMBL
	PF00169	UniProtKB/TrEMBL
	PH_17	UniProtKB/TrEMBL
PhenoGen	Sntb1	PhenoGen
PROSITE	PDZ	UniProtKB/TrEMBL
	PH_DOMAIN	UniProtKB/TrEMBL
SMART	PDZ	UniProtKB/TrEMBL
	SM00233	UniProtKB/TrEMBL
Superfamily-SCOP	PDZ	UniProtKB/TrEMBL
	PH domain-like	UniProtKB/TrEMBL
UniProt	A0A8I6GLN6_RAT	UniProtKB/TrEMBL
	D3ZWC6	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2009-10-22	Sntb1	syntrophin, beta 1	Sntb1	syntrophin, basic 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Sntb1	syntrophin, basic 1	Sntb1_predicted	syntrophin, basic 1 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Sntb1_predicted	syntrophin, basic 1 (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 Annotations - SMPDB

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Imported Disease Annotations - ClinVar

Imported Annotations - SMPDB