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Gene: Stag3 (STAG3 cohesin complex component) Rattus norvegicus

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Symbol:

Stag3

Name:

STAG3 cohesin complex component

RGD ID:

621333

Description:

Predicted to enable chromatin binding activity. Predicted to be involved in establishment of meiotic sister chromatid cohesion. Predicted to act upstream of or within homologous chromosome pairing at meiosis and protein localization to chromosome. Predicted to be located in male germ cell nucleus and nuclear lumen. Predicted to be part of meiotic cohesin complex. Predicted to be active in chromatin and nucleus. Human ortholog(s) of this gene implicated in primary ovarian insufficiency 8 and spermatogenic failure 61. Orthologous to human STAG3 (STAG3 cohesin complex component); INTERACTS WITH 17beta-estradiol; 6-propyl-2-thiouracil; acrylamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

cohesin subunit SA-3; cohesin subunit SA-3-like; LOC102553065; SCC3 homolog 3; stromal antigen 3; stromalin 3; stromalin-3

RGD Orthologs

Alliance Orthologs

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):	STAG3 (STAG3 cohesin complex component)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB
Mus musculus (house mouse):	Stag3 (STAG3 cohesin complex component)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Stag3 (STAG3 cohesin complex component)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	STAG3 (STAG3 cohesin complex component)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	STAG3 (STAG3 cohesin complex component)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Stag3 (STAG3 cohesin complex component)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	STAG3 (STAG3 cohesin complex component)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	STAG3 (STAG3 cohesin complex component)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Stag3 (STAG3 cohesin complex component)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	STAG3 (STAG3 cohesin complex component)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Stag3 (STAG3 cohesin complex component)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	IRR1	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	SA	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	scc-3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	22,398,291 - 22,428,548 (+)	NCBI		GRCr8
mRatBN7.2	12	17,284,677 - 17,314,936 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	17,284,794 - 17,314,935 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	18,251,836 - 18,281,954 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	18,875,558 - 18,905,676 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	17,928,975 - 17,959,093 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	19,599,741 - 19,630,775 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	19,599,834 - 19,630,780 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	21,656,406 - 21,686,863 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	17,865,273 - 17,896,993 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	17,854,794 - 17,886,514 (+)	NCBI
Celera	12	19,209,251 - 19,239,357 (+)	NCBI		Celera
Cytogenetic Map	12	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

Female Infertility (ISO)

genetic disease (ISO)

pleomorphic xanthoastrocytoma (ISO)

premature menopause (ISO)

primary ovarian insufficiency (ISO)

primary ovarian insufficiency 8 (ISO)

spermatogenic failure 3 (ISO)

spermatogenic failure 61 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP)

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

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (EXP)

aflatoxin B1 (ISO)

amitrole (EXP)

ammonium chloride (EXP)

atrazine (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

cadmium dichloride (ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

cisplatin (ISO)

dexamethasone (ISO)

Dibutyl phosphate (ISO)

dorsomorphin (ISO)

ethylparaben (ISO)

fipronil (EXP)

indometacin (ISO)

menadione (ISO)

methimazole (EXP)

perfluorooctanoic acid (ISO)

SB 431542 (ISO)

serpentine asbestos (ISO)

silicon dioxide (ISO)

streptozocin (ISO)

sulfadimethoxine (EXP)

titanium dioxide (ISO)

trichloroethene (EXP)

triptonide (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chromosome segregation (IEA)

establishment of meiotic sister chromatid cohesion (IBA,ISO,ISS)

homologous chromosome pairing at meiosis (IEA,ISO)

meiotic cell cycle (IEA,TAS)

protein localization to chromosome (IEA,ISO)

sister chromatid cohesion (IBA)

Cellular Component

chromatin (IBA)

chromosome (IEA)

condensed nuclear chromosome (IEA,ISO)

lateral element (IEA,ISO)

male germ cell nucleus (IEA,ISO)

meiotic cohesin complex (IBA,IEA,ISO)

nucleolus (IEA,ISO)

nucleoplasm (IEA,ISO)

nucleus (IBA,IEA)

synaptonemal complex (IEA,ISO,TAS)

transverse filament (IEA,ISO)

Molecular Function

chromatin binding (IBA)

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Evaluation of the Stag3 gene and the synaptonemal complex in a rat model (as/as) for male infertility.	Bayes M, etal., Mol Reprod Dev 2001 Nov;60(3):414-7.
2.	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.
3.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
4.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
7.	GOA pipeline	RGD automated data pipeline
8.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:10698974	PMID:15870106	PMID:17696610	PMID:21242291	PMID:21527826	PMID:22164254	PMID:22664934	PMID:22711701	PMID:24797475

Genomics

Comparative Map Data

Stag3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	12	22,398,291 - 22,428,548 (+)	NCBI		GRCr8
mRatBN7.2	12	17,284,677 - 17,314,936 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	12	17,284,794 - 17,314,935 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	12	18,251,836 - 18,281,954 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	12	18,875,558 - 18,905,676 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	12	17,928,975 - 17,959,093 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	12	19,599,741 - 19,630,775 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	12	19,599,834 - 19,630,780 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	12	21,656,406 - 21,686,863 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	12	17,865,273 - 17,896,993 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	12	17,854,794 - 17,886,514 (+)	NCBI
Celera	12	19,209,251 - 19,239,357 (+)	NCBI		Celera
Cytogenetic Map	12	q11	NCBI

STAG3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	100,177,724 - 100,219,334 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	100,177,563 - 100,214,387 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	99,775,347 - 99,812,010 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	99,613,474 - 99,649,946 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	7	99,420,188 - 99,456,661	NCBI
Celera	7	94,510,888 - 94,547,361 (+)	NCBI		Celera
Cytogenetic Map	7	q22.1	NCBI
HuRef	7	94,410,283 - 94,446,767 (+)	NCBI		HuRef
CHM1_1	7	99,705,616 - 99,742,079 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	101,417,534 - 101,459,147 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	99,135,619 - 99,172,096 (+)	NCBI

Stag3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	138,270,757 - 138,310,659 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	138,278,502 - 138,310,655 (+)	Ensembl		GRCm39 Ensembl
GRCm38	5	138,272,514 - 138,312,397 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	138,280,240 - 138,312,393 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	138,721,737 - 138,753,621 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	138,510,339 - 138,542,181 (+)	NCBI		MGSCv36	mm8
Celera	5	135,263,360 - 135,295,714 (+)	NCBI		Celera
Cytogenetic Map	5	G2	NCBI
cM Map	5	77.01	NCBI

Stag3
(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_004955573	602,016 - 630,936 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955573	602,635 - 631,775 (-)	NCBI	ChiLan1.0	ChiLan1.0

STAG3
(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	6	118,096,086 - 118,133,316 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	166,360,718 - 166,397,948 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	92,215,064 - 92,249,202 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	105,645,413 - 105,682,220 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	105,648,425 - 105,681,850 (+)	Ensembl	panpan1.1		panPan2

STAG3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	9,326,402 - 9,354,049 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	6	9,326,448 - 9,353,204 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	11,030,377 - 11,058,041 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	9,260,281 - 9,287,741 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	6	9,260,338 - 9,286,897 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	6	9,112,910 - 9,140,199 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	9,091,601 - 9,119,271 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	9,272,833 - 9,300,317 (-)	NCBI		UU_Cfam_GSD_1.0

Stag3
(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_024409344	133,578,049 - 133,603,974 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936543	432,552 - 458,112 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936543	430,804 - 458,112 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

STAG3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	8,175,915 - 8,211,889 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	8,175,908 - 8,211,898 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	7,310,188 - 7,346,525 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

STAG3
(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	28	12,853,456 - 12,893,098 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	28	12,853,404 - 12,891,638 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666070	3,388,692 - 3,427,657 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Stag3
(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_004624740	16,707,999 - 16,732,537 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624740	16,706,695 - 16,734,142 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Stag3
62 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	41
Count of miRNA genes:	36
Interacting mature miRNAs:	38
Transcripts:	ENSRNOT00000042006
Prediction methods:	Miranda, Rnahybrid
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
61443	Btemp2	Thermal response to stress QTL 2	3.3	0.000094	body temperature trait (VT:0005535)	core body temperature (CMO:0001036)	12	15025183	20794014	Rat
8552964	Pigfal17	Plasma insulin-like growth factor 1 level QTL 17	3.5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564495	46669029	Rat
9590147	Scort7	Serum corticosterone level QTL 7	13.61	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	12	1	42110980	Rat
1549829	Scl48	Serum cholesterol level QTL 48	5		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	12	9603277	46669029	Rat
61331	Eau2	Experimental allergic uveoretinitis QTL 2		0.0005	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	12	8525423	28064601	Rat
2293684	Bmd26	Bone mineral density QTL 26	4.4	0.0002	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	12	15872653	32974238	Rat
6893681	Bw109	Body weight QTL 109	2.3	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	12	1	23297788	Rat
1302792	Scl21	Serum cholesterol level QTL 21	3.8	0.0011	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	12	7196730	46669029	Rat
1598855	Bp294	Blood pressure QTL 294	3.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	1	34851688	Rat
1600391	Edcs2	Endometrial carcinoma susceptibility QTL2	3.5	0.01	uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	12	6833190	17870186	Rat
10755457	Coatc14	Coat color QTL 14		0.01759	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	12	1	22591684	Rat
1331761	Bp218	Blood pressure QTL 218	2.973		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	11073825	45055165	Rat
8694179	Bw150	Body weight QTL 150	2.9	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	1	42110980	Rat
7411545	Bw128	Body weight QTL 128	5.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	12	1	42110980	Rat
7411547	Bw129	Body weight QTL 129		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	5564495	46669029	Rat
1300157	Rf21	Renal function QTL 21	4.4		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	12	9318216	32103380	Rat
737979	Pia22	Pristane induced arthritis QTL 22	53.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	1	44465750	Rat
2300186	Bmd59	Bone mineral density QTL 59	7.1	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	12	10474137	46669029	Rat
7411660	Foco28	Food consumption QTL 28	10.9	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
1331755	Bp219	Blood pressure QTL 219	3.041		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	11073825	28064557	Rat
2312418	Kidm41	Kidney mass QTL 41	3.7	0.0001	kidney mass (VT:0002707)	single kidney wet weight to body weight ratio (CMO:0000622)	12	1	19611090	Rat
7411641	Foco19	Food consumption QTL 19	27.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
1549912	Bp268	Blood pressure QTL 268			arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	13182736	46669029	Rat
2302060	Pia37	Pristane induced arthritis QTL 37	6.1	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	13198157	46669029	Rat
1641928	Alcrsp5	Alcohol response QTL 5			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	12	12812385	46669029	Rat
8552912	Pigfal6	Plasma insulin-like growth factor 1 level QTL 6	5		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564498	46669029	Rat
10059594	Kidm46	Kidney mass QTL 46	3.79	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	12	6107579	46669029	Rat
1581516	Cm56	Cardiac mass QTL 56	4.2	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	12	1	29333307	Rat
9590086	Insglur6	Insulin/glucose ratio QTL 6	18.97	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	12	1	42110980	Rat
8552918	Pigfal7	Plasma insulin-like growth factor 1 level QTL 7			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	12	5564495	46669029	Rat
1549902	Bp269	Blood pressure QTL 269			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	13182736	46669029	Rat
61404	Bw120	Body weight QTL 120	5.1		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	12	12351619	46669029	Rat
1331786	Kidm11	Kidney mass QTL 11	3.571		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	12	11073825	24234895	Rat
2293699	Bss49	Bone structure and strength QTL 49	5.61	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	12	10474137	46669029	Rat
634351	Apr5	Acute phase response QTL 5	6.7		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	12	1	44503507	Rat
634350	Apr4	Acute phase response QTL 4	6		orosomucoid 1 amount (VT:0010541)	plasma orosomucoid 1 level (CMO:0001467)	12	1172005	46172005	Rat
61416	Pia4	Pristane induced arthritis QTL 4	8.4		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	12	13635523	30827399	Rat
7204484	Bp358	Blood pressure QTL 358		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	12	13008296	19212979	Rat
7387292	Kidm42	Kidney mass QTL 42	3.03	0.0004	kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	12	1	36247923	Rat
61421	Cia12	Collagen induced arthritis QTL 12	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	12	13635523	35682913	Rat
2303569	Gluco44	Glucose level QTL 44	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	12812385	46669029	Rat
7411586	Foco5	Food consumption QTL 5	5.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
2303575	Insul14	Insulin level QTL 14	4		blood insulin amount (VT:0001560)	blood insulin level (CMO:0000349)	12	1	42450532	Rat
7411588	Foco6	Food consumption QTL 6		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
2302042	Pia38	Pristane induced arthritis QTL 38	3.5	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	12	1	44503507	Rat
7411595	Foco9	Food consumption QTL 9	4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	1	42110980	Rat
7411597	Foco10	Food consumption QTL 10		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	12	5564495	46669029	Rat
2293086	Iddm30	Insulin dependent diabetes mellitus QTL 30	3.82		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	12	8449490	28302290	Rat
631543	Bp83	Blood pressure QTL 83	5.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	12	15550826	38478808	Rat

Markers in Region

D12Rat29

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	12	22,424,290 - 22,424,457 (+)	Marker Load Pipeline
mRatBN7.2	12	17,310,678 - 17,310,845 (+)	MAPPER	mRatBN7.2
Rnor_6.0	12	19,626,515 - 19,626,681	NCBI	Rnor6.0
Rnor_5.0	12	21,682,606 - 21,682,772	UniSTS	Rnor5.0
RGSC_v3.4	12	17,892,735 - 17,892,902	RGD	RGSC3.4
RGSC_v3.4	12	17,892,736 - 17,892,902	UniSTS	RGSC3.4
RGSC_v3.1	12	17,882,258 - 17,882,424	RGD
Celera	12	19,235,112 - 19,235,266	UniSTS
RH 3.4 Map	12	250.2	UniSTS
RH 3.4 Map	12	250.2	RGD
RH 2.0 Map	12	181.0	RGD
SHRSP x BN Map	12	21.58	RGD
Cytogenetic Map	12	q11	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	7	33	111	57	57	26	22	26	6	151	75	92	35	60	31

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001436424	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_053730	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006249020	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017598240	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089015	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089016	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089017	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039089018	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063270988	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AY027880	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474107	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000012	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000042006 ⟹ ENSRNOP00000041918

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	12	17,284,794 - 17,314,935 (+)	Ensembl
Rnor_6.0 Ensembl	12	19,599,960 - 19,630,771 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092039 ⟹ ENSRNOP00000072692

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	12	19,599,834 - 19,630,780 (+)	Ensembl

RefSeq Acc Id:

NM_053730 ⟹ NP_446182

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	22,398,408 - 22,428,548 (+)	NCBI
mRatBN7.2	12	17,284,794 - 17,314,936 (+)	NCBI
Rnor_6.0	12	19,599,960 - 19,630,772 (+)	NCBI
Rnor_5.0	12	21,656,406 - 21,686,863 (+)	NCBI
RGSC_v3.4	12	17,865,273 - 17,896,993 (+)	RGD
Celera	12	19,209,251 - 19,239,357 (+)	RGD

Sequence:

show sequence

AACTGTGTTCATCTAGAGGTCATTCTTCCAAGCTCAAACACTGGATTAACATGCCTACTCTGTG
GTCACCCTCCACCCAGCACCATGGCTCTTCCTCAGGCAGTATGTCCTCCCCTCTTCGAAAGTCT
GTGAGATGTGCACAGATGGCCTTGTCTCCTTGTTCTTCCAACATCCAACCCTGTGATGACAGAG
ACTCCCAGGGAACTGCAGAATGGGATAGTTCCTCAACTAGTGAAGACAGTGACTTTGAAGATAG
CTTAAGAAGAAATGTGAGGAAGAGAGCAGCAAAACGACCACCCAAAGCTATCCCAGTGGCAAAA
CATCCGAAGAAGCAGTCCCACATAGTACCTGGTGGGAATGACAAGAACAAGTCAGTGCCGCCAA
CCAGTGACCTTTTTGATGCTGTGAAAGCTGCTAGAAGTTGTGCGCAGTCTTTGGTAGATGAGTG
GCTAGAAAACTACAAGCAAGATGAAAATGCAGGATTCTTGGAACTTGTTAATTTTTTCATCCGA
GCCTGTGGATGTAAAAGCACTGTCACACCCGAGATGTTCAAGACAATGTCCAACTCAGAGATCA
TCCAGCACCTAACAGAAGAGTTTAATGAGGACTCAGGTGACTATCCCCTGACAGCTCCAGGTCC
ATCCTGGAAGAAGTTCCAGGGAAGCTTCTGTGAGTTTGTGAAGACACTAGTCTGTCAGTGCCAG
TACAGCCTCCTCTTTGACGGCTTTCCAATGGATGACCTTATCTCCCTGCTCATTGGCCTCTCAG
ATTCCCAGGTCCGAGCCTTTCGTCATACTAGTACTTTGGCTGCCATGAAGCTAATGACTTCTCT
GGTAAAAGTTGCACTCCAGTTGAGTCTGCACAAAGACAACAATCAACGTCAGTATGAGGCAGAA
CGAAACAAGGGGCCAGAGCAGAGGGCACCAGAGCGGCTCGAGAGTCTGCTGGAGAAACGAAAAG
AGTTCCAAGAGAATCAAGAGGAGATAGAGGGGATGATGAATGCCATCTTCAGGGGTGTCTTTGT
TCATCGGTACAGGGACATCCTTCCTGAGATCCGTGCTGTCTGCATCGAGGAGATCGGGTGTTGG
ATGCAAAGCTACAGCACCTCCTTTCTTAATGACAGCTACCTAAAATATATTGGCTGGACCCTGC
ATGACAAGCACAAGGAAGTCCGCCTAAAGTGTGTGAAGGCTCTGGCAGGGCTGTACAGCAACCA
GGAGCTGAGTTCACGGATGGAGCTCTTTACTAATCGCTTCAAGGACCGGATGGTTTCCATGGTC
ATGGACAGAGAGAGTGAAGTAGCAGTGGAGGCCATCAGATTGCTGACCCTTATTCTGAAGAACA
TGGAGGGAGTACTGACTAGTGCAGATTGTGAGAAAATTTACTCCATTGTATACATTTCTAATCG
TGCCATGGCCTCTTCTGCAGGGGAATTTGTGTACTGGAAGATTTTCCATCCTGAATGTGGGGCA
AAAGCAGTGAGTGGCAGGGAGCGACGCCGGAGTCCACAAGCCCAGAGGACTTTCATTTACCTTT
TATTGGCCTTCTTTATGGAGAGTGAGCATCACGACCATGCTGCTTACCTAGTTGACAGCTTGTG
GGACTGTGCAGGGTCTTACCTGAAGGACTGGGAGAGTCTGACAAGTCTGTTGCTGCAGAAAGAC
CAGAATCTGGGTGATATGCAAGAGAGAATGTTGATAGAAATCCTGGTGTCCAGTGCCCGGCAAG
CTGCAGAGGGTCACCCACCAGTGGGGCGCATCACTGGAAAGAAGAGTCTGACCGCCAAAGAACG
CAAGCTTCAAGCTTATGATAAGGTGAAGCTGGCTGAGCACCTCATCCCCCTCTTGCCCCAGCTC
CTTGCCAAGTTCTCAGCAGATGCAGAGAACGTTGCTCCCTTGCTCCGGCTGCTCAGTTACTTTG
ACCTCAACATTTATTGCACTCAGCGCTTGGAGAAGCACTTGGAGCTGCTTCTGCAACAACTCCA
GGAGGTGGTGGTGAAGCACGTAGAGCCTGAGGTGCTTGAGGCTGCAGCACATGCCCTCTATTTG
CTCTGCAAGCCAGAGTTCACCTTCTTCAGCAGAGTGGACTTCGCCAGAAGCCAATTAGTAGATC
TGCTGACTGATAGATTCCAGCAGGAGCTTGACGACCTAATGCAGTCATCCTTCCTAGATGAGGA
TGAGGTATACAGTCTGACAGCCACTCTGAAGCGTCTCTCTGCCTTTTACAATGCTCATGACCTG
ACTCGCTGGGAGATCTCTGAACCATGTTCTCGACTCCTCCGGAAGGCTGTAGACACAGGAGAAG
TTCCTCACCAGGTGATTTTGCCAGCCTTGACTCTGGTATATTTTTCCATTCTCTGGACAGTGAC
CCACATTTCAGAGTCTACTTCCCAAAAGCAGCTGATGAGTCTGAAGAAAAGAATGGTAGCCTTC
TGTGAACTTTGCCAAAGCTGCCTCTCAGACGTGGACCCAGAGATCCAGGAGCAGGCTTTTGTTT
TATTAAGTGACCTGCTTCTCATCTTCAGCCCCCAGATGGTTGTAGGGGGCCGGGATTTCCTTAG
GCCTCTTGTCTTTTTTCCGGAAGCTACTCTCCAGTCGGAACTAGCCAGCTTCCTCATGGACCAT
GTCTTTCTCCAGCCTGGAGAATTGGGCAACGGTCAATCACAGGAGGATCACGTCCAAATAGAGC
TTCTGCACCAGAGGCGCCGCCTGCTTGCAGGATTTTGTAAGCTGTTGCTTTATGGGGTATTGGA
ACTGGATGCGGCCTCAGATGTTTTCAAACACTACAACAAGTTCTATGAAGATTATGGTGACATT
ATCAAGGAAACATTAACTCGGGCGAGACAAATTGACCGATGTCAGTGCTCTCGGATCCTGCTCC
TGAGCCTAAAGCAGCTCTACACAGAACTGATACAGGAGCAGGGGCCCCAGGACCTGACAGAACT
GCCAGCCTTCATTGAGATGAGAGACCTGGCCCGGAGGTTTGCCTTGAGCTTTGGACCCCAGCAG
CTCCATAACAGAGATCTTGTGGTCATGCTGCACAAGGAAGGCATCAAGTTCTCATTGTCTGAGC
TTCCTCCTGCTGGCTCTTCTCGAGAGCCCCCAAATATTGCATTCCTGGAGCTTCTTTCAGAGTT
CTCCCCCCGCCTCTTCCATCAGGACAAACAGCTACTACTATCATACCTGGAAAAGTGTCTGCAG
CGTGTCTCCATGGCACCTAGCCATCCCTGGGGTCCAGTCACCACCTACTGCCACTCCCTCCATC
TAGTAGAGAACACAGCAGAGGCCAGCTCTCAGGGGCCCCCCCACTCCAAGAAGAGGTGTATTGA
AGTTCCCCGCAGGCTTCAGGAAGAAGAGTCTTCATCCCAGGGAGAAAGCCTTCAGCTGAACAGT
GGCCCCACAACACCTACACTCACCTCCACAGCAGTGAAGAGAAGGCAGTCTCCGAGGACAGTAG
GCAAGAGGCAAAAAGGTGGACCAGGACCAGGACCAGGACCAGGACCAGGACCAGGACCAGGACC
AGGACCAGGACCAGGACCAGGACCAGGACCAGAGCTGATCTGCAGTCAGCAGCTCTCAGGCACC
CAGAGGTTGAAAATGTCGAGTGCACCGTGTTTCCAGATTCGATGTGATCCTTCTGGCTCTGGCT
TGGGCAAGCAGATGACCCGACTCAGCCTTATGGAAGAAGATGAGGAAGAAGAGCTGAGACTTCT
GGATGAAGAATGGCAATGTGGAGACAAGCTACTTCATAGCCCTTCTTCTCCCAGTGAGCATGGG
CTGGACCTATTAGATACAACAGAGCTGAACATGGAGGATTTCTGATGGGACTTAGGCTTCTCCC
CTTCTCCACTTACCACACTGCAAGGCCATGAGTGAGCAAACGAAGGAGTAAAATGAAGCATTCT
TTGGGTCCCAGCCAAGTACTTTAAGGGAATAGAGAAATGGCCTTATTCAAACCTCCATTTCTTT
CTGAAGTGGGTGCTGTATATAGATGCTATGAGCCCTGTGATCCTTAATTCACCCTAGCTTTATG
CTTTTGCCTGTTTGAAGTGGTGGGAGTTGGGTAGGGAGCTTTACCTCAGTATTGAAGTTTAATA
AACCTTCTGTTTGATATCTCTTCCCCAAACACTGCCAAGCTCTCAATAAACATGTTCACATCAG
CTAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006249020 ⟹ XP_006249082

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	22,398,291 - 22,428,548 (+)	NCBI
mRatBN7.2	12	17,284,677 - 17,314,936 (+)	NCBI
Rnor_6.0	12	19,599,863 - 19,630,775 (+)	NCBI
Rnor_5.0	12	21,656,406 - 21,686,863 (+)	NCBI

Sequence:

show sequence

CACCTGAGGAAGAGGAGCCGCTGCGGCGGGCGTCTCGCTTCAGAGGTGGGATGTCCACAGAGAT
CTGAAAGGACCCCTGAGCTGGATTAACATGCCTACTCTGTGGTCACCCTCCACCCAGCACCATG
GCTCTTCCTCAGGCAGTATGTCCTCCCCTCTTCGAAAGTCTGTGAGATGTGCACAGATGGCCTT
GTCTCCTTGTTCTTCCAACATCCAACCCTGTGATGACAGAGACTCCCAGGGAACTGCAGAATGG
GATAGTTCCTCAACTAGTGAAGACAGTGACTTTGAAGATAGCTTAAGAAGAAATGTGAGGAAGA
GAGCAGCAAAACGACCACCCAAAGCTATCCCAGTGGCAAAACATCCGAAGAAGCAGTCCCACAT
AGTACCTGGTGGGAATGACAAGAACAAGTCAGTGCCGCCAACCAGTGACCTTTTTGATGCTGTG
AAAGCTGCTAGAAGTTGTGCGCAGTCTTTGGTAGATGAGTGGCTAGAAAACTACAAGCAAGATG
AAAATGCAGGATTCTTGGAACTTGTTAATTTTTTCATCCGAGCCTGTGGATGTAAAAGCACTGT
CACACCCGAGATGTTCAAGACAATGTCCAACTCAGAGATCATCCAGCACCTAACAGAAGAGTTT
AATGAGGACTCAGGTGACTATCCCCTGACAGCTCCAGGTCCATCCTGGAAGAAGTTCCAGGGAA
GCTTCTGTGAGTTTGTGAAGACACTAGTCTGTCAGTGCCAGTACAGCCTCCTCTTTGACGGCTT
TCCAATGGATGACCTTATCTCCCTGCTCATTGGCCTCTCAGATTCCCAGGTCCGAGCCTTTCGT
CATACTAGTACTTTGGCTGCCATGAAGCTAATGACTTCTCTGGTAAAAGTTGCACTCCAGTTGA
GTCTGCACAAAGACAACAATCAACGTCAGTATGAGGCAGAACGAAACAAGGGGCCAGAGCAGAG
GGCACCAGAGCGGCTCGAGAGTCTGCTGGAGAAACGAAAAGAGTTCCAAGAGAATCAAGAGGAG
ATAGAGGGGATGATGAATGCCATCTTCAGGGGTGTCTTTGTTCATCGGTACAGGGACATCCTTC
CTGAGATCCGTGCTGTCTGCATCGAGGAGATCGGGTGTTGGATGCAAAGCTACAGCACCTCCTT
TCTTAATGACAGCTACCTAAAATATATTGGCTGGACCCTGCATGACAAGCACAAGGAAGTCCGC
CTAAAGTGTGTGAAGGCTCTGGCAGGGCTGTACAGCAACCAGGAGCTGAGTTCACGGATGGAGC
TCTTTACTAATCGCTTCAAGGACCGGATGGTTTCCATGGTCATGGACAGAGAGAGTGAAGTAGC
AGTGGAGGCCATCAGATTGCTGACCCTTATTCTGAAGAACATGGAGGGAGTACTGACTAGTGCA
GATTGTGAGAAAATTTACTCCATTGTATACATTTCTAATCGTGCCATGGCCTCTTCTGCAGGGG
AATTTGTGTACTGGAAGATTTTCCATCCTGAATGTGGGGCAAAAGCAGTGAGTGGCAGGGAGCG
ACGCCGGAGTCCACAAGCCCAGAGGACTTTCATTTACCTTTTATTGGCCTTCTTTATGGAGAGT
GAGCATCACGACCATGCTGCTTACCTAGTTGACAGCTTGTGGGACTGTGCAGGGTCTTACCTGA
AGGACTGGGAGAGTCTGACAAGTCTGTTGCTGCAGAAAGACCAGAATCTGGGTGATATGCAAGA
GAGAATGTTGATAGAAATCCTGGTGTCCAGTGCCCGGCAAGCTGCAGAGGGTCACCCACCAGTG
GGGCGCATCACTGGAAAGAAGAGTCTGACCGCCAAAGAACGCAAGCTTCAAGCTTATGATAAGG
TGAAGCTGGCTGAGCACCTCATCCCCCTCTTGCCCCAGCTCCTTGCCAAGTTCTCAGCAGATGC
AGAGAACGTTGCTCCCTTGCTCCGGCTGCTCAGTTACTTTGACCTCAACATTTATTGCACTCAG
CGCTTGGAGAAGCACTTGGAGCTGCTTCTGCAACAACTCCAGGAGGTGGTGGTGAAGCACGTAG
AGCCTGAGGTGCTTGAGGCTGCAGCACATGCCCTCTATTTGCTCTGCAAGCCAGAGTTCACCTT
CTTCAGCAGAGTGGACTTCGCCAGAAGCCAATTAGTAGATCTGCTGACTGATAGATTCCAGCAG
GAGCTTGACGACCTAATGCAGTCATCCTTCCTAGATGAGGATGAGGTATACAGTCTGACAGCCA
CTCTGAAGCGTCTCTCTGCCTTTTACAATGCTCATGACCTGACTCGCTGGGAGATCTCTGAACC
ATGTTCTCGACTCCTCCGGAAGGCTGTAGACACAGGAGAAGTTCCTCACCAGGTGATTTTGCCA
GCCTTGACTCTGGTATATTTTTCCATTCTCTGGACAGTGACCCACATTTCAGAGTCTACTTCCC
AAAAGCAGCTGATGAGTCTGAAGAAAAGAATGGTAGCCTTCTGTGAACTTTGCCAAAGCTGCCT
CTCAGACGTGGACCCAGAGATCCAGGAGCAGGCTTTTGTTTTATTAAGTGACCTGCTTCTCATC
TTCAGCCCCCAGATGGTTGTAGGGGGCCGGGATTTCCTTAGGCCTCTTGTCTTTTTTCCGGAAG
CTACTCTCCAGTCGGAACTAGCCAGCTTCCTCATGGACCATGTCTTTCTCCAGCCTGGAGAATT
GGGCAACGGTCAATCACAGGAGGATCACGTCCAAATAGAGCTTCTGCACCAGAGGCGCCGCCTG
CTTGCAGGATTTTGTAAGCTGTTGCTTTATGGGGTATTGGAACTGGATGCGGCCTCAGATGTTT
TCAAACACTACAACAAGTTCTATGAAGATTATGGTGACATTATCAAGGAAACATTAACTCGGGC
GAGACAAATTGACCGATGTCAGTGCTCTCGGATCCTGCTCCTGAGCCTAAAGCAGCTCTACACA
GAACTGATACAGGAGCAGGGGCCCCAGGACCTGACAGAACTGCCAGCCTTCATTGAGATGAGAG
ACCTGGCCCGGAGGTTTGCCTTGAGCTTTGGACCCCAGCAGCTCCATAACAGAGATCTTGTGGT
CATGCTGCACAAGGAAGGCATCAAGTTCTCATTGTCTGAGCTTCCTCCTGCTGGCTCTTCTCGA
GAGCCCCCAAATATTGCATTCCTGGAGCTTCTTTCAGAGTTCTCCCCCCGCCTCTTCCATCAGG
ACAAACAGCTACTACTATCATACCTGGAAAAGTGTCTGCAGCGTGTCTCCATGGCACCTAGCCA
TCCCTGGGGTCCAGTCACCACCTACTGCCACTCCCTCCATCTAGTAGAGAACACAGCAGAGGCC
AGCTCTCAGGGGCCCCCCCACTCCAAGAAGAGGTGTATTGAAGTTCCCCGCAGGCTTCAGGAAG
AAGAGTCTTCATCCCAGGGAGAAAGCCTTCAGCTGAACAGTGGCCCCACAACACCTACACTCAC
CTCCACAGCAGTGAAGAGAAGGCAGTCTCCGAGGACAGTAGGCAAGAGGCAAAAAGGTGGACCA
GGACCAGGACCAGGACCAGGACCAGGACCAGGACCAGGACCAGGACCAGGACCAGGACCAGGAC
CAGGACCAGAGCTGATCTGCAGTCAGCAGCTCTCAGGCACCCAGAGGTTGAAAATGTCGAGTGC
ACCGTGTTTCCAGATTCGATGTGATCCTTCTGGCTCTGGCTTGGGCAAGCAGATGACCCGACTC
AGCCTTATGGAAGAAGATGAGGAAGAAGAGCTGAGACTTCTGGATGAAGAATGGCAATGTGGAG
ACAAGCTACTTCATAGCCCTTCTTCTCCCAGTGAGCATGGGCTGGACCTATTAGATACAACAGA
GCTGAACATGGAGGATTTCTGATGGGACTTAGGCTTCTCCCCTTCTCCACTTACCACACTGCAA
GGCCATGAGTGAGCAAACGAAGGAGTAAAATGAAGCATTCTTTGGGTCCCAGCCAAGTACTTTA
AGGGAATAGAGAAATGGCCTTATTCAAACCTCCATTTCTTTCTGAAGTGGGTGCTGTATATAGA
TGCTATGAGCCCTGTGATCCTTAATTCACCCTAGCTTTATGCTTTTGCCTGTTTGAAGTGGTGG
GAGTTGGGTAGGGAGCTTTACCTCAGTATTGAAGTTTAATAAACCTTCTGTTTGATATCTCTTC
CCCAAACACTGCCAAGCTCTCAATAAACATGTTCACATCAGCTATTT

hide sequence

RefSeq Acc Id:

XM_039089015 ⟹ XP_038944943

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	22,398,297 - 22,428,548 (+)	NCBI
mRatBN7.2	12	17,284,677 - 17,314,936 (+)	NCBI

RefSeq Acc Id:

XM_039089016 ⟹ XP_038944944

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	22,398,754 - 22,428,548 (+)	NCBI
mRatBN7.2	12	17,285,149 - 17,314,936 (+)	NCBI

RefSeq Acc Id:

XM_039089017 ⟹ XP_038944945

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	22,398,499 - 22,428,548 (+)	NCBI
mRatBN7.2	12	17,284,979 - 17,314,936 (+)	NCBI

RefSeq Acc Id:

XM_039089018 ⟹ XP_038944946

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	22,398,291 - 22,428,548 (+)	NCBI
mRatBN7.2	12	17,284,677 - 17,314,936 (+)	NCBI

RefSeq Acc Id:

XM_063270988 ⟹ XP_063127058

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	12	22,398,300 - 22,428,548 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001423353	(Get FASTA)	NCBI Sequence Viewer
	NP_446182	(Get FASTA)	NCBI Sequence Viewer
	XP_006249082	(Get FASTA)	NCBI Sequence Viewer
	XP_038944943	(Get FASTA)	NCBI Sequence Viewer
	XP_038944944	(Get FASTA)	NCBI Sequence Viewer
	XP_038944945	(Get FASTA)	NCBI Sequence Viewer
	XP_038944946	(Get FASTA)	NCBI Sequence Viewer
	XP_063127058	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAK13052	(Get FASTA)	NCBI Sequence Viewer
	EDL83913	(Get FASTA)	NCBI Sequence Viewer
	EDL83914	(Get FASTA)	NCBI Sequence Viewer
	EDL83915	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000041918
	ENSRNOP00000041918.4
	ENSRNOP00000103947
	ENSRNOP00000110662
GenBank Protein	Q99M76	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_446182 ⟸ NM_053730

- UniProtKB:

Q99M76 (UniProtKB/Swiss-Prot), A6KSU8 (UniProtKB/TrEMBL), A6KSU9 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MPTLWSPSTQHHGSSSGSMSSPLRKSVRCAQMALSPCSSNIQPCDDRDSQGTAEWDSSSTSEDS
DFEDSLRRNVRKRAAKRPPKAIPVAKHPKKQSHIVPGGNDKNKSVPPTSDLFDAVKAARSCAQS
LVDEWLENYKQDENAGFLELVNFFIRACGCKSTVTPEMFKTMSNSEIIQHLTEEFNEDSGDYPL
TAPGPSWKKFQGSFCEFVKTLVCQCQYSLLFDGFPMDDLISLLIGLSDSQVRAFRHTSTLAAMK
LMTSLVKVALQLSLHKDNNQRQYEAERNKGPEQRAPERLESLLEKRKEFQENQEEIEGMMNAIF
RGVFVHRYRDILPEIRAVCIEEIGCWMQSYSTSFLNDSYLKYIGWTLHDKHKEVRLKCVKALAG
LYSNQELSSRMELFTNRFKDRMVSMVMDRESEVAVEAIRLLTLILKNMEGVLTSADCEKIYSIV
YISNRAMASSAGEFVYWKIFHPECGAKAVSGRERRRSPQAQRTFIYLLLAFFMESEHHDHAAYL
VDSLWDCAGSYLKDWESLTSLLLQKDQNLGDMQERMLIEILVSSARQAAEGHPPVGRITGKKSL
TAKERKLQAYDKVKLAEHLIPLLPQLLAKFSADAENVAPLLRLLSYFDLNIYCTQRLEKHLELL
LQQLQEVVVKHVEPEVLEAAAHALYLLCKPEFTFFSRVDFARSQLVDLLTDRFQQELDDLMQSS
FLDEDEVYSLTATLKRLSAFYNAHDLTRWEISEPCSRLLRKAVDTGEVPHQVILPALTLVYFSI
LWTVTHISESTSQKQLMSLKKRMVAFCELCQSCLSDVDPEIQEQAFVLLSDLLLIFSPQMVVGG
RDFLRPLVFFPEATLQSELASFLMDHVFLQPGELGNGQSQEDHVQIELLHQRRRLLAGFCKLLL
YGVLELDAASDVFKHYNKFYEDYGDIIKETLTRARQIDRCQCSRILLLSLKQLYTELIQEQGPQ
DLTELPAFIEMRDLARRFALSFGPQQLHNRDLVVMLHKEGIKFSLSELPPAGSSREPPNIAFLE
LLSEFSPRLFHQDKQLLLSYLEKCLQRVSMAPSHPWGPVTTYCHSLHLVENTAEASSQGPPHSK
KRCIEVPRRLQEEESSSQGESLQLNSGPTTPTLTSTAVKRRQSPRTVGKRQKGGPGPGPGPGPG
PGPGPGPGPGPGPGPELICSQQLSGTQRLKMSSAPCFQIRCDPSGSGLGKQMTRLSLMEEDEEE
ELRLLDEEWQCGDKLLHSPSSPSEHGLDLLDTTELNMEDF

hide sequence

RefSeq Acc Id:	XP_006249082 ⟸ XM_006249020
- Peptide Label:	isoform X1
- UniProtKB:	Q99M76 (UniProtKB/Swiss-Prot), A6KSU8 (UniProtKB/TrEMBL), A6KSU9 (UniProtKB/TrEMBL)
- Sequence:	show sequence MPTLWSPSTQHHGSSSGSMSSPLRKSVRCAQMALSPCSSNIQPCDDRDSQGTAEWDSSSTSEDS DFEDSLRRNVRKRAAKRPPKAIPVAKHPKKQSHIVPGGNDKNKSVPPTSDLFDAVKAARSCAQS LVDEWLENYKQDENAGFLELVNFFIRACGCKSTVTPEMFKTMSNSEIIQHLTEEFNEDSGDYPL TAPGPSWKKFQGSFCEFVKTLVCQCQYSLLFDGFPMDDLISLLIGLSDSQVRAFRHTSTLAAMK LMTSLVKVALQLSLHKDNNQRQYEAERNKGPEQRAPERLESLLEKRKEFQENQEEIEGMMNAIF RGVFVHRYRDILPEIRAVCIEEIGCWMQSYSTSFLNDSYLKYIGWTLHDKHKEVRLKCVKALAG LYSNQELSSRMELFTNRFKDRMVSMVMDRESEVAVEAIRLLTLILKNMEGVLTSADCEKIYSIV YISNRAMASSAGEFVYWKIFHPECGAKAVSGRERRRSPQAQRTFIYLLLAFFMESEHHDHAAYL VDSLWDCAGSYLKDWESLTSLLLQKDQNLGDMQERMLIEILVSSARQAAEGHPPVGRITGKKSL TAKERKLQAYDKVKLAEHLIPLLPQLLAKFSADAENVAPLLRLLSYFDLNIYCTQRLEKHLELL LQQLQEVVVKHVEPEVLEAAAHALYLLCKPEFTFFSRVDFARSQLVDLLTDRFQQELDDLMQSS FLDEDEVYSLTATLKRLSAFYNAHDLTRWEISEPCSRLLRKAVDTGEVPHQVILPALTLVYFSI LWTVTHISESTSQKQLMSLKKRMVAFCELCQSCLSDVDPEIQEQAFVLLSDLLLIFSPQMVVGG RDFLRPLVFFPEATLQSELASFLMDHVFLQPGELGNGQSQEDHVQIELLHQRRRLLAGFCKLLL YGVLELDAASDVFKHYNKFYEDYGDIIKETLTRARQIDRCQCSRILLLSLKQLYTELIQEQGPQ DLTELPAFIEMRDLARRFALSFGPQQLHNRDLVVMLHKEGIKFSLSELPPAGSSREPPNIAFLE LLSEFSPRLFHQDKQLLLSYLEKCLQRVSMAPSHPWGPVTTYCHSLHLVENTAEASSQGPPHSK KRCIEVPRRLQEEESSSQGESLQLNSGPTTPTLTSTAVKRRQSPRTVGKRQKGGPGPGPGPGPG PGPGPGPGPGPGPGPELICSQQLSGTQRLKMSSAPCFQIRCDPSGSGLGKQMTRLSLMEEDEEE ELRLLDEEWQCGDKLLHSPSSPSEHGLDLLDTTELNMEDF hide sequence

Ensembl Acc Id:

ENSRNOP00000072692 ⟸ ENSRNOT00000092039

Ensembl Acc Id:

ENSRNOP00000041918 ⟸ ENSRNOT00000042006

RefSeq Acc Id:	XP_038944946 ⟸ XM_039089018
- Peptide Label:	isoform X2
- UniProtKB:	A6KSU9 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038944943 ⟸ XM_039089015
- Peptide Label:	isoform X1
- UniProtKB:	Q99M76 (UniProtKB/Swiss-Prot), A6KSU8 (UniProtKB/TrEMBL), A6KSU9 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038944945 ⟸ XM_039089017
- Peptide Label:	isoform X1
- UniProtKB:	Q99M76 (UniProtKB/Swiss-Prot), A6KSU8 (UniProtKB/TrEMBL), A6KSU9 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038944944 ⟸ XM_039089016
- Peptide Label:	isoform X1
- UniProtKB:	Q99M76 (UniProtKB/Swiss-Prot), A6KSU8 (UniProtKB/TrEMBL), A6KSU9 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063127058 ⟸ XM_063270988
- Peptide Label:	isoform X2
- UniProtKB:	A6KSU9 (UniProtKB/TrEMBL)

Protein Domains

SCD

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q99M76-F1-model_v2	AlphaFold	Q99M76	1-1256	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698504

Promoter ID:

EPDNEW_R9027

Type:

multiple initiation site

Name:

Stag3_1

Description:

stromal antigen 3

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	12	19,599,847 - 19,599,907	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:621333	AgrOrtholog
BioCyc Gene	G2FUF-19773	BioCyc
Ensembl Genes	ENSRNOG00000001360	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000042006	ENTREZGENE
	ENSRNOT00000042006.5	UniProtKB/Swiss-Prot
	ENSRNOT00000127131	ENTREZGENE
	ENSRNOT00000162804	ENTREZGENE
Gene3D-CATH	1.25.10.10	UniProtKB/Swiss-Prot
InterPro	ARM-like	UniProtKB/Swiss-Prot
	ARM-type_fold	UniProtKB/Swiss-Prot
	Cohesin_Scc3/SA	UniProtKB/Swiss-Prot
	SCD	UniProtKB/Swiss-Prot
	STAG	UniProtKB/Swiss-Prot
KEGG Report	rno:114522	UniProtKB/Swiss-Prot
NCBI Gene	114522	ENTREZGENE
PANTHER	COHESIN SUBUNIT SA-3	UniProtKB/Swiss-Prot
	PTHR11199	UniProtKB/Swiss-Prot
Pfam	SCD	UniProtKB/Swiss-Prot
	STAG	UniProtKB/Swiss-Prot
PhenoGen	Stag3	PhenoGen
PROSITE	SCD	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000001360	RatGTEx
Superfamily-SCOP	SSF48371	UniProtKB/Swiss-Prot
UniProt	A6KSU8	ENTREZGENE, UniProtKB/TrEMBL
	A6KSU9	ENTREZGENE, UniProtKB/TrEMBL
	Q99M76	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2023-05-05	Stag3	STAG3 cohesin complex component	Stag3	stromal antigen 3	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2021-03-09	Stag3	stromal antigen 3	LOC102553065	cohesin subunit SA-3-like	Data merged from RGD:7729409	737654	PROVISIONAL
2013-12-18	LOC102553065	cohesin subunit SA-3-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2004-02-26	Stag3	stromal antigen 3			Symbol and Name status set to approved	625702	APPROVED
2002-08-07	Stag3	stromal antigen 3			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_domains	contains a polymorphic hexanucleotide repeat doamin	727325
gene_homology	aa sequence shares 93% identity with mouse Stag3, and 77% with human STAG3	727325
gene_product	member of the stromalin protein family	727325
gene_protein	predicted protein contains 1256 aa residues	727325

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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