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Gene: Smoc1 (SPARC related modular calcium binding 1) Rattus norvegicus

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Symbol:

Smoc1

Name:

SPARC related modular calcium binding 1

RGD ID:

1303126

Description:

Predicted to enable extracellular matrix binding activity and heparin binding activity. Predicted to be involved in several processes, including extracellular matrix organization; limb development; and regulation of osteoblast differentiation. Predicted to act upstream of or within positive regulation of cell-substrate adhesion. Predicted to be located in extracellular region. Predicted to be active in basement membrane and extracellular space. Human ortholog(s) of this gene implicated in microphthalmia with limb anomalies. Orthologous to human SMOC1 (SPARC related modular calcium binding 1); INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 17beta-estradiol.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

SPARC-related modular calcium binding protein 1; SPARC-related modular calcium-binding protein 1

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):	SMOC1 (SPARC related modular calcium binding 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Smoc1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Smoc1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SMOC1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SMOC1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Smoc1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SMOC1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SMOC1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Smoc1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Smoc1 (SPARC related modular calcium binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	MOB2 (MOB kinase activator 2)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	SMOC1 (SPARC related modular calcium binding 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	SMOC1 (SPARC related modular calcium binding 1)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Smoc1 (SPARC related modular calcium binding 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Smoc1 (SPARC related modular calcium binding 1)	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	smoc1 (SPARC related modular calcium binding 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	smoc1 (SPARC related modular calcium binding 1)	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	T04F3.2	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector)
Caenorhabditis elegans (roundworm):	T04F3.2	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	magu	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	magu	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	smoc1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	smoc1	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|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	6	106,432,592 - 106,593,956 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	6	106,432,603 - 106,593,956 (+)	Ensembl				GRCr8
mRatBN7.2	6	100,701,330 - 100,897,441 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	100,701,346 - 100,862,699 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	6	100,862,518 - 101,021,819 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	101,161,701 - 101,321,002 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	100,541,613 - 100,700,583 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	104,718,403 - 104,879,611 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	104,718,512 - 104,877,980 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	6	112,880,618 - 113,039,819 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	6	104,825,269 - 104,998,689 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	6	98,556,953 - 98,713,644 (+)	NCBI		Celera
RGSC_v3.1	6	104,828,724 - 105,002,145 (+)	NCBI
Cytogenetic Map	6	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Experimental Liver Cirrhosis (ISO)

genetic disease (ISO)

microphthalmia with limb anomalies (ISO,ISS)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

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

1-naphthyl isothiocyanate (EXP)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP,ISO)

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

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

4,4'-diaminodiphenylmethane (EXP)

4,4'-sulfonyldiphenol (ISO)

4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one (ISO)

4-hydroxyphenyl retinamide (ISO)

8-Br-cAMP (ISO)

acetamide (EXP)

acrylamide (EXP,ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (EXP,ISO)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

belinostat (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

buspirone (EXP)

Butylbenzyl phthalate (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

chromium(6+) (ISO)

cisplatin (ISO)

cobalt dichloride (EXP)

copper atom (EXP)

copper(0) (EXP)

copper(II) chloride (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

DDE (ISO)

dexamethasone (ISO)

diallyl trisulfide (ISO)

dibutyl phthalate (EXP,ISO)

dioxygen (ISO)

diuron (EXP)

dorsomorphin (ISO)

endosulfan (EXP)

entinostat (ISO)

ethanol (ISO)

flutamide (EXP)

folic acid (ISO)

glafenine (EXP)

glyphosate (ISO)

indometacin (ISO)

lipopolysaccharide (ISO)

manganese atom (ISO)

manganese(0) (ISO)

manganese(II) chloride (ISO)

mercury dibromide (ISO)

methapyrilene (EXP)

methoxychlor (EXP)

methylmercury chloride (ISO)

Monobutylphthalate (ISO)

Muraglitazar (EXP)

N-nitrosodiethylamine (EXP)

N-nitrosodimethylamine (EXP)

nefazodone (EXP)

nickel atom (ISO)

nimesulide (EXP)

nitrofen (EXP)

Nutlin-3 (ISO)

O-methyleugenol (ISO)

p-chloromercuribenzoic acid (ISO)

paclitaxel (ISO)

panobinostat (ISO)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (EXP)

phenylmercury acetate (ISO)

pioglitazone (ISO)

piperonyl butoxide (EXP)

pirinixic acid (ISO)

progesterone (ISO)

propiconazole (ISO)

resveratrol (ISO)

SB 431542 (ISO)

senecionine (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sodium dichromate (EXP)

sodium dodecyl sulfate (ISO)

succimer (ISO)

sulforaphane (ISO)

T-2 toxin (ISO)

tamoxifen (ISO)

temozolomide (ISO)

Tesaglitazar (EXP)

tetrachloromethane (EXP)

thioacetamide (EXP)

titanium dioxide (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

troglitazone (EXP)

valdecoxib (EXP)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

extracellular matrix organization (IEA,ISO)

eye development (IEA,ISO)

limb development (IEA,ISO)

positive regulation of cell-substrate adhesion (IEA,ISO)

regulation of osteoblast differentiation (IEA,ISO)

Cellular Component

basement membrane (IEA,ISO)

Molecular Function

calcium ion binding (IEA)

extracellular matrix binding (IEA,ISO)

metal ion binding (IEA)

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
3.	GOA pipeline	RGD automated data pipeline
4.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	Characterization of SMOC-1, a novel modular calcium-binding protein in basement membranes.	Vannahme C, etal., J Biol Chem 2002 Oct 11;277(41):37977-86. Epub 2002 Jul 18.

Additional References at PubMed

PMID:15060002	PMID:18757743	PMID:19578009	PMID:20359165	PMID:21194678	PMID:35997022

Genomics

Comparative Map Data

Smoc1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	106,432,592 - 106,593,956 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	6	106,432,603 - 106,593,956 (+)	Ensembl				GRCr8
mRatBN7.2	6	100,701,330 - 100,897,441 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	100,701,346 - 100,862,699 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	6	100,862,518 - 101,021,819 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	101,161,701 - 101,321,002 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	100,541,613 - 100,700,583 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	104,718,403 - 104,879,611 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	104,718,512 - 104,877,980 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	6	112,880,618 - 113,039,819 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	6	104,825,269 - 104,998,689 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	6	98,556,953 - 98,713,644 (+)	NCBI		Celera
RGSC_v3.1	6	104,828,724 - 105,002,145 (+)	NCBI
Cytogenetic Map	6	q24	NCBI

SMOC1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	69,879,416 - 70,032,366 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	69,854,131 - 70,032,366 (+)	Ensembl			hg38	GRCh38
GRCh37	14	70,346,133 - 70,499,083 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	69,415,896 - 69,568,836 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	14	69,415,895 - 69,567,836	NCBI
Celera	14	50,410,240 - 50,563,191 (+)	NCBI		Celera
Cytogenetic Map	14	q24.2	NCBI
HuRef	14	50,514,680 - 50,667,182 (+)	NCBI		HuRef
CHM1_1	14	70,284,243 - 70,437,101 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	14	64,087,047 - 64,239,860 (+)	NCBI		T2T-CHM13v2.0

Smoc1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	81,073,582 - 81,233,188 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	81,073,582 - 81,233,188 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	12	81,026,808 - 81,186,414 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	81,026,808 - 81,186,414 (+)	Ensembl			mm10	GRCm38
MGSCv37	12	82,127,795 - 82,287,401 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	12	81,945,679 - 82,105,248 (+)	NCBI		MGSCv36	mm8
Celera	12	82,492,397 - 82,652,161 (+)	NCBI		Celera
Cytogenetic Map	12	D1	NCBI
cM Map	12	37.28	NCBI

Smoc1
(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_004955466	378,277 - 528,260 (-)	Ensembl
ChiLan1.0	NW_004955466	378,277 - 528,260 (-)	NCBI	ChiLan1.0	ChiLan1.0

SMOC1
(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	15	71,003,319 - 71,152,651 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	70,219,843 - 70,369,164 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	50,472,951 - 50,622,267 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	69,344,894 - 69,493,887 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	69,345,185 - 69,493,887 (+)	Ensembl			panPan2	panpan1.1

SMOC1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	43,608,511 - 43,763,262 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	43,607,634 - 43,763,274 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	43,296,605 - 43,451,194 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	43,835,725 - 43,990,414 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	43,835,433 - 43,990,426 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	43,450,255 - 43,604,842 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	43,523,754 - 43,678,011 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	43,883,727 - 44,038,329 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Smoc1
(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_024408640	60,977,655 - 61,134,830 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936495	13,056,766 - 13,215,620 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936495	13,056,851 - 13,215,581 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SMOC1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	93,480,159 - 93,628,328 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	7	93,480,064 - 93,628,332 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	99,860,755 - 99,940,356 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SMOC1
(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	24	47,119,210 - 47,272,629 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	24	47,119,553 - 47,273,453 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666053	35,344,946 - 35,501,015 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Smoc1
(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_004624734	31,048,828 - 31,199,974 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624734	31,051,637 - 31,199,911 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Smoc1
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	7	95,251,482 - 95,446,252 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Smoc1
1091 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	184
Count of miRNA genes:	149
Interacting mature miRNAs:	160
Transcripts:	ENSRNOT00000007947
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.

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
2293088	Iddm28	Insulin dependent diabetes mellitus QTL 28	5.21		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	6	68767270	135411972	Rat
1331799	Bp211	Blood pressure QTL 211	3.66407		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	88019181	136741135	Rat
1358355	Srcrt4	Stress Responsive Cort QTL 4	6.39		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	6	106095977	147156653	Rat
61329	Eae9	Experimental allergic encephalomyelitis QTL 9	3.7		body mass (VT:0001259)	change in body weight (CMO:0002045)	6	84490437	129490437	Rat
2313399	Anxrr28	Anxiety related response QTL 28			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	6	101593607	138161926	Rat
1331725	Bp212	Blood pressure QTL 212	3.52475		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	99437079	125323237	Rat
1331789	Rf37	Renal function QTL 37	3.224		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	6	86494122	112380234	Rat
1331722	Thshl1	Thyroid stimulating hormone level QTL 1	11.7	0.0001	blood thyroid-stimulating hormone amount (VT:0005119)	serum thyroid stimulating hormone level (CMO:0001248)	6	99708426	112483760	Rat
4145119	Mcs25	Mammary carcinoma susceptibility QTL 25		0.0001	mammary gland integrity trait (VT:0010552)	ratio of deaths to total study population during a period of time (CMO:0001023)	6	71278722	116278722	Rat
70176	Mcsm1	Mammary carcinoma susceptibility modifier QTL 1			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	64367996	109367996	Rat
1581563	Uae33	Urinary albumin excretion QTL 33			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	93560258	136550638	Rat
10054138	Gmadr3	Adrenal mass QTL 3	3.68	0.00045	adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	6	90871046	135871046	Rat
1641917	Colcr5	Colorectal carcinoma resistance QTL 5	3.18	0.0009	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	6	98944780	143944780	Rat
61414	Pia3	Pristane induced arthritis QTL 3	4.5		joint integrity trait (VT:0010548)	post-insult time to onset of experimental arthritis (CMO:0001450)	6	100704576	136029228	Rat
724524	Uae2	Urinary albumin excretion QTL 2	2.7	0.0005	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	79198463	144254945	Rat
737827	Hcar11	Hepatocarcinoma resistance QTL 11	4.4		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	6	46050607	116278722	Rat
2303624	Vencon5	Ventilatory control QTL 5	4.45		respiration trait (VT:0001943)	minute ventilation (CMO:0000132)	6	93778632	138778632	Rat
1576309	Emca7	Estrogen-induced mammary cancer QTL 7	4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	20859430	113082285	Rat
2293837	Kiddil1	Kidney dilation QTL 1	3.7		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	86867923	110125012	Rat
2293842	Kiddil3	Kidney dilation QTL 3	4.3		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	86867923	110125012	Rat
10054123	Srcrt6	Stress Responsive Cort QTL 6	2.5	0.0043	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	6	90871046	135871046	Rat
724536	Uae7	Urinary albumin excretion QTL 7	3.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	6	93560258	136550638	Rat
1576302	Schws4	Schwannoma susceptibility QTL 4		0.0078	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	78204640	123204640	Rat
1581550	Pur8	Proteinuria QTL 8			urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	6	93560258	136550638	Rat
1300075	Glom7	Glomerulus QTL 7	5.6	0.0000002	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	6	76937178	121937178	Rat
12801471	Schws9	Schwannoma susceptibility QTL 9			nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	101593607	146593607	Rat

Markers in Region

RH128007

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	100,862,340 - 100,862,542 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	104,879,248 - 104,879,449	NCBI	Rnor6.0
Rnor_5.0	6	113,039,456 - 113,039,657	UniSTS	Rnor5.0
RGSC_v3.4	6	105,000,155 - 105,000,356	UniSTS	RGSC3.4
Celera	6	98,715,110 - 98,715,311	UniSTS
RH 3.4 Map	6	717.1	UniSTS
Cytogenetic Map	6	q24	UniSTS

RH141674

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	100,860,980 - 100,861,192 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	104,877,888 - 104,878,099	NCBI	Rnor6.0
Rnor_5.0	6	113,038,096 - 113,038,307	UniSTS	Rnor5.0
RGSC_v3.4	6	104,998,795 - 104,999,006	UniSTS	RGSC3.4
Celera	6	98,713,750 - 98,713,961	UniSTS
RH 3.4 Map	6	727.4	UniSTS
Cytogenetic Map	6	q24	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	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	153	91	90	59	39	59	6	302	139	11	132	80	92	31	16	16

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001002835	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001412316	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006240284	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006240285	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008764785	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008764786	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063261932	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063261933	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC122625	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BN000343	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ222878	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000007947 ⟹ ENSRNOP00000007947

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	6	106,432,603 - 106,588,154 (+)	Ensembl
mRatBN7.2 Ensembl	6	100,701,346 - 100,856,902 (+)	Ensembl
Rnor_6.0 Ensembl	6	104,718,512 - 104,877,980 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000101574 ⟹ ENSRNOP00000084098

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	100,701,349 - 100,862,691 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000114143 ⟹ ENSRNOP00000086850

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	6	106,432,606 - 106,593,956 (+)	Ensembl
mRatBN7.2 Ensembl	6	100,701,425 - 100,862,699 (+)	Ensembl

RefSeq Acc Id:

NM_001002835 ⟹ NP_001002835

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	106,432,606 - 106,593,956 (+)	NCBI
mRatBN7.2	6	100,701,346 - 100,862,704 (+)	NCBI
Rnor_6.0	6	104,718,677 - 104,877,782 (+)	NCBI
Rnor_5.0	6	112,880,618 - 113,039,819 (+)	NCBI
RGSC_v3.4	6	104,825,269 - 104,998,689 (+)	RGD
Celera	6	98,556,953 - 98,713,644 (+)	RGD

Sequence:

show sequence

ATGCTGCCCGCGCGCGTCCGTCTGCTCACGCCCCACTTGCTGCTCCTGTTGGTGCAGTTGTCCC
CGGCCGGCGGCCACCGCACCACCGGCCCCAGGTTTCTAATAAGTGACCGTGACCCTCCGTGCAA
CCCCCACTGCCCCAGGACTCAACCCAAGCCCATCTGCGCGTCTGACGGCAGGTCCTATGAGTCC
ATGTGTGAGTACCAGAGAGCCAAGTGCCGAGACCCTGCCCTGGCCGTGGTCCATCGAGGTAGAT
GCAAAGATGCTGGCCAAAGCAAGTGTCGCCTGGAGAGGGCTCAGGCCTTGGAACAAGCCAAGAA
GCCCCAGGAGGCTGTGTTTGTCCCAGAGTGTGGCGAGGATGGTTCCTTCACACAGGTGCAGTGT
CATACGTACACAGGGTACTGCTGGTGTGTCACCCCAGACGGGAAGCCCATCAGTGGCTCGTCCG
TGCAGAATAAAACTCCTGTATGTTCAGGTCCAGTCACTGACAAGCCCTTGAGCCAGGGTAACTC
AGGAAGGAAAGATGATGGCTCTAAACCCACGCCCACGATGGAGACCCAGCCTGTGTTCGATGGA
GATGAAATCACAGCCCCTACCTTATGGATTAAGCACTTGGTAATCAAAGACTCCAAATTGAATA
ACACCAATGTAAGAAATTCAGAGAAAGTCCATTCTTGTGACCAGGAGAGACAGAGCGCCCTGGA
AGAGGCCCGGCAGAATCCTCGAGAGGGCATTGTGATCCCCGAGTGTGCTCCTGGTGGGCTCTAT
AAGCCGGTGCAATGCCACCAATCCACGGGCTACTGCTGGTGTGTCCTAGTGGACACAGGACGCC
CATTGCCGGGGACTTCCACACGGTATGTGATGCCAAGTTGTGAGAGTGACGCCAGAGCCAAGAG
TGTAGAGGTGGATGACCCTTTCAAGGACAGGGAGTTACCAGGCTGTCCTGAAGGGAAGAAGATG
GAATTTATCACCAGCCTGCTGGATGCCCTCACCACAGACATGGTTCAGGCCATTAACTCAGCAG
CGCCCACTGGAGGTGGGAGGTTCTCAGAGCCAGACCCCAGCCACACCCTGGAGGAGCGGGTGGC
ACACTGGTACTTCAGCCAGCTGGATAGCAACAGCAGTGATGACATTAACAAGCGGGAGATGAAA
CCGTTCAAGCGCTATGTGAAGAAGAAAGCCAAGCCCAAGAAGTGCGCCCGGCGCTTCACCGACT
ACTGTGACCTGAACAAGGATAAGGCCATCTCGCTGCCTGAGCTGAAGGGCTGCCTGGGTGTTAG
CAAAGAAGGTGGTAGCCTTGGCAGCTTCCCTCAGGGAAAACGAGCAGGCACAAATCCATTCATT
GGACGTCTCGTCTAA

hide sequence

RefSeq Acc Id:

NM_001412316 ⟹ NP_001399245

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	106,432,606 - 106,593,956 (+)	NCBI
mRatBN7.2	6	100,701,346 - 100,862,704 (+)	NCBI

RefSeq Acc Id:

XM_006240284 ⟹ XP_006240346

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	106,432,593 - 106,593,951 (+)	NCBI
mRatBN7.2	6	100,701,330 - 100,862,704 (+)	NCBI
Rnor_6.0	6	104,718,403 - 104,879,611 (+)	NCBI
Rnor_5.0	6	112,880,618 - 113,039,819 (+)	NCBI

Sequence:

show sequence

ATGGCCCAGGCTCCGGCATCCAACCTGCTGTCGCCCGGGCCAGACCGAGCGCAGCAGGCGCCAC
GCGCAGAGCACACGCTCGCGCTCCAGCTCCCGGCCTCCGCCGTTCATGACCGTGACCCCCGGAC
GCAGGCTCCGCCAGCCCCTGCTGCAGGCTCTTCCGCCACTCCCAGCCGCCGCAAGGGTCCCCCC
CCACCACCACCAAGTGCTTTGAAGCTAGCCTGAGACCCCCCTGCCCGCTGCCCGCTAGTGGCTG
CTCGGCTCGGCTGGCACCATGCTGCCCGCGCGCGTCCGTCTGCTCACGCCCCACTTGCTGCTCC
TGTTGGTGCAGTTGTCCCCGGCCGGCGGCCACCGCACCACCGGCCCCAGGTTTCTAATAAGTGA
CCGTGACCCTCCGTGCAACCCCCACTGCCCCAGGACTCAACCCAAGCCCATCTGCGCGTCTGAC
GGCAGGTCCTATGAGTCCATGTGTGAGTACCAGAGAGCCAAGTGCCGAGACCCTGCCCTGGCCG
TGGTCCATCGAGGTAGATGCAAAGATGCTGGCCAAAGCAAGTGTCGCCTGGAGAGGGCTCAGGC
CTTGGAACAAGCCAAGAAGCCCCAGGAGGCTGTGTTTGTCCCAGAGTGTGGCGAGGATGGTTCC
TTCACACAGGTGCAGTGTCATACGTACACAGGGTACTGCTGGTGTGTCACCCCAGACGGGAAGC
CCATCAGTGGCTCGTCCGTGCAGAATAAAACTCCTGTATGTTCAGGTCCAGTCACTGACAAGCC
CTTGAGCCAGGGTAACTCAGGAAGGAAAGTCTCCTTTCGTTTCTTTTTAACCCTCAATTCAGAT
GATGGCTCTAAACCCACGCCCACGATGGAGACCCAGCCTGTGTTCGATGGAGATGAAATCACAG
CCCCTACCTTATGGATTAAGCACTTGGTAATCAAAGACTCCAAATTGAATAACACCAATGTAAG
AAATTCAGAGAAAGTCCATTCTTGTGACCAGGAGAGACAGAGCGCCCTGGAAGAGGCCCGGCAG
AATCCTCGAGAGGGCATTGTGATCCCCGAGTGTGCTCCTGGTGGGCTCTATAAGCCGGTGCAAT
GCCACCAATCCACGGGCTACTGCTGGTGTGTCCTAGTGGACACAGGACGCCCATTGCCGGGGAC
TTCCACACGCTATGTGATGCCAAGTTGTGAGAGTGACGCCAGAGCCAAGAGTGTAGAGGTGGAT
GACCCTTTCAAGGACAGGGAGTTACCAGGCTGTCCTGAAGGGAAGAAGATGGAATTTATCACCA
GCCTGCTGGATGCCCTCACCACAGACATGGTTCAGGCCATTAACTCAGCAGCGCCCACTGGAGG
TGGGAGGTTCTCAGAGCCAGACCCCAGCCACACCCTGGAGGAGCGGGTGGCACACTGGTACTTC
AGCCAGCTGGATAGCAACAGCAGTGATGACATTAACAAGCGGGAGATGAAACCGTTCAAGCGCT
ATGTGAAGAAGAAAGCCAAGCCCAAGAAGTGCGCCCGGCGCTTCACCGACTACTGTGACCTGAA
CAAGGATAAGGCCATCTCGCTGCCTGAGCTGAAGGGCTGCCTGGGTGTTAGCAAAGAAGGTGGT
AGCCTTGGCAGCTTCCCTCAGGGAAAACGAGCAGGCACAAATCCATTCATTGGACGTCTCGTCT
AAAGAGCAGAAAAATCGAAAGGCCAATGGAGAGTCTGAGAAGACAGGACTGACCATCAGACACC
TAACCTTCAGCGCTGCCCGTGGCCCAGCCACAGCCCATGTAACATAAGTGGTGCCCTCCATGTT
TGCACTTTTAATAACTCTTATGTGTGTGTTCTGTTTCTGGTTCCATTTGTAAACACCAGTTATC
TAATACCGCAGTGGGATCAGGAAAGGGAAGAAAAGCTGTTTATTCTCTCTTTTATTGTTAAGTT
TTTGGATCTGCTACTGACAACTTGTAGGTTATCAGGGGAGGGGTGGGACCAAGAAGAAAGAGAT
TTATATACTGTATATAAATATATATGTAAATTGTATAGATCTTTTGTACAGGCATTGACATCAC
TGTTTGTCCCTTCCCTTCCCAATACTTCCTCTGGACTCATAGTCCAACTCTCTCAAACTGTATC
CTTAGCTTACCTGAGTTTCACTGTGGATGGACTCTGTGAGAGTAGCTAGGAGCCCTGTGCTTGT
GCTGTGGACACCACGTTTTCTTCTGGTGAGAAGAGGGTACTGGTCCATGCCATTAGCTCTCAAA
GTTCAGTCACTTGGCTGTTGGCTGGTTAGGAGGGGAGCCCAGCTCCTGTGAGGGCCAGCATGGA
TTCCAGTTCTCTGGTGGCCCCCACATGTTCTTGCTATTCGGATCCCTTGGCAGTCTATGGTAAA
TAACGGAGCAAATTATACTTGAAGGGGTTGAATTTGGCTACTTTAAACATTTCCTCCCATGTTT
AGCACCTCCCCCATGTAGGACACGAGAGGTGAGAACCCAAGCATGTGAGGAAAAGGACTCCCAG
GGTTTTCCTTCAGCAGGTGTTTGGCATCTGAGGAGATGGTGAAGAGAACAGAGGATCTGAACCA
GCCGTTCTGCAAACCCACAAGAGAGTCTCCACAAGCATGTAGCTCCCAAAACTAGAGTCAGATT
AGGCTTTACTTCCATGCTGTCCCTTCATCTCTTGCCCTCGTCCTCACTGATTGGGCCAGCCATC
TTGTTGACCAATACCACAGTTCCTTATTCCTCTGGCTTTTCTCATGGACTTCCAGAATTCTAAA
ATTGACATGGCATCCCTTCCTTCTGCTTCCCCAGGAGTAATAGGAGCTATAGGGAAAGCTAGGT
TTTAGCACAGAGTGTCACCTGGGCAGATAAGCAGCTTTTTCTGTCTAGGTGACATGCTGACTCA
GATGTCCTTCAGTCAGAGCAGCAAGTGACACTTAGCAGCTCGTCCTACGGTCAGCCCTGATGGC
AGTGAGGGAGGCCAGGACTGGTGCTTTTGCTGGCTTGCTCTCTGCAATCTGCCTTGCCTGGGAT
TTTATCTCAGTGTCCTGTAAATGTACCCACTTTGGTAAACCCTATTCTATCTTGGGTCTGGAAA
GCCTTGGCCCCTAATGCTGCCCACATGTGGGGAACATTGCCTCCTCAGGGCTTGATTTGATGAA
GTCTTGGCTCCAGAAGGCCCCTGCTGCTCTAGTGAAAGTCATGACCATTCCATGATGATCAGTG
GCCCTGGCCTGCATGGTAAGGTGGAAAGAACCCCTTCTCTTGGAGCCTTGAGCAGAAACACTGC
AGCATCCTGGAGCTGGGTGGTCCTCAAGCAGACCCCATCCCTGTCTCCTGACCTGAAGGAAATG
TGCACAGAGAAGCCACCTCTATGTAGGAGTTTAGAATCTGACCAGCCGTCTTCTCTCTCACAGA
TGGGCGTAGGCTGTGCTGTGTGGTTTTCCCTTGGGGGGGCGGGAGCAAGGAGAAGTATTTGTAG
CTTGTTTTATAAAAAATAAAAAAAAATGGATAAATCTTG

hide sequence

RefSeq Acc Id:

XM_006240285 ⟹ XP_006240347

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	106,432,593 - 106,593,951 (+)	NCBI
mRatBN7.2	6	100,701,330 - 100,862,707 (+)	NCBI
Rnor_6.0	6	104,718,403 - 104,879,611 (+)	NCBI
Rnor_5.0	6	112,880,618 - 113,039,819 (+)	NCBI

Sequence:

show sequence

ATGGCCCAGGCTCCGGCATCCAACCTGCTGTCGCCCGGGCCAGACCGAGCGCAGCAGGCGCCAC
GCGCAGAGCACACGCTCGCGCTCCAGCTCCCGGCCTCCGCCGTTCATGACCGTGACCCCCGGAC
GCAGGCTCCGCCAGCCCCTGCTGCAGGCTCTTCCGCCACTCCCAGCCGCCGCAAGGGTCCCCCC
CCACCACCACCAAGTGCTTTGAAGCTAGCCTGAGACCCCCCTGCCCGCTGCCCGCTAGTGGCTG
CTCGGCTCGGCTGGCACCATGCTGCCCGCGCGCGTCCGTCTGCTCACGCCCCACTTGCTGCTCC
TGTTGGTGCAGTTGTCCCCGGCCGGCGGCCACCGCACCACCGGCCCCAGGTTTCTAATAAGTGA
CCGTGACCCTCCGTGCAACCCCCACTGCCCCAGGACTCAACCCAAGCCCATCTGCGCGTCTGAC
GGCAGGTCCTATGAGTCCATGTGTGAGTACCAGAGAGCCAAGTGCCGAGACCCTGCCCTGGCCG
TGGTCCATCGAGGTAGATGCAAAGATGCTGGCCAAAGCAAGTGTCGCCTGGAGAGGGCTCAGGC
CTTGGAACAAGCCAAGAAGCCCCAGGAGGCTGTGTTTGTCCCAGAGTGTGGCGAGGATGGTTCC
TTCACACAGGTGCAGTGTCATACGTACACAGGGTACTGCTGGTGTGTCACCCCAGACGGGAAGC
CCATCAGTGGCTCGTCCGTGCAGAATAAAACTCCTGTATGTTCAGGTCCAGTCACTGACAAGCC
CTTGAGCCAGGGTAACTCAGGAAGGAAAGTCTCCTTTCGTTTCTTTTTAACCCTCAATTCAGAT
GATGGCTCTAAACCCACGCCCACGATGGAGACCCAGCCTGTGTTCGATGGAGATGAAATCACAG
CCCCTACCTTATGGATTAAGCACTTGGTAATCAAAGACTCCAAATTGAATAACACCAATGTAAG
AAATTCAGAGAAAGTCCATTCTTGTGACCAGGAGAGACAGAGCGCCCTGGAAGAGGCCCGGCAG
AATCCTCGAGAGGGCATTGTGATCCCCGAGTGTGCTCCTGGTGGGCTCTATAAGCCGGTGCAAT
GCCACCAATCCACGGGCTACTGCTGGTGTGTCCTAGTGGACACAGGACGCCCATTGCCGGGGAC
TTCCACACGCTATGTGATGCCAAGTTGTGAGAGTGACGCCAGAGCCAAGAGTGTAGAGGTGGAT
GACCCTTTCAAGGACAGGGAGTTACCAGGCTGTCCTGAAGGGAAGAAGATGGAATTTATCACCA
GCCTGCTGGATGCCCTCACCACAGACATGGTTCAGGCCATTAACTCAGCAGCGCCCACTGGAGG
TGGGAGGTTCTCAGAGCCAGACCCCAGCCACACCCTGGAGGAGCGGGTGGCACACTGGTACTTC
AGCCAGCTGGATAGCAACAGCAGTGATGACATTAACAAGCGGGAGATGAAACCGTTCAAGCGCT
ATGTGAAGAAGAAAGCCAAGCCCAAGAAGTGCGCCCGGCGCTTCACCGACTACTGTGACCTGAA
CAAGGATAAGGCCATCTCGCTGCCTGAGCTGAAGGGCTGCCTGGGTGTTAGCAAAGAAGTTGGA
CGTCTCGTCTAAAGAGCAGAAAAATCGAAAGGCCAATGGAGAGTCTGAGAAGACAGGACTGACC
ATCAGACACCTAACCTTCAGCGCTGCCCGTGGCCCAGCCACAGCCCATGTAACATAAGTGGTGC
CCTCCATGTTTGCACTTTTAATAACTCTTATGTGTGTGTTCTGTTTCTGGTTCCATTTGTAAAC
ACCAGTTATCTAATACCGCAGTGGGATCAGGAAAGGGAAGAAAAGCTGTTTATTCTCTCTTTTA
TTGTTAAGTTTTTGGATCTGCTACTGACAACTTGTAGGTTATCAGGGGAGGGGTGGGACCAAGA
AGAAAGAGATTTATATACTGTATATAAATATATATGTAAATTGTATAGATCTTTTGTACAGGCA
TTGACATCACTGTTTGTCCCTTCCCTTCCCAATACTTCCTCTGGACTCATAGTCCAACTCTCTC
AAACTGTATCCTTAGCTTACCTGAGTTTCACTGTGGATGGACTCTGTGAGAGTAGCTAGGAGCC
CTGTGCTTGTGCTGTGGACACCACGTTTTCTTCTGGTGAGAAGAGGGTACTGGTCCATGCCATT
AGCTCTCAAAGTTCAGTCACTTGGCTGTTGGCTGGTTAGGAGGGGAGCCCAGCTCCTGTGAGGG
CCAGCATGGATTCCAGTTCTCTGGTGGCCCCCACATGTTCTTGCTATTCGGATCCCTTGGCAGT
CTATGGTAAATAACGGAGCAAATTATACTTGAAGGGGTTGAATTTGGCTACTTTAAACATTTCC
TCCCATGTTTAGCACCTCCCCCATGTAGGACACGAGAGGTGAGAACCCAAGCATGTGAGGAAAA
GGACTCCCAGGGTTTTCCTTCAGCAGGTGTTTGGCATCTGAGGAGATGGTGAAGAGAACAGAGG
ATCTGAACCAGCCGTTCTGCAAACCCACAAGAGAGTCTCCACAAGCATGTAGCTCCCAAAACTA
GAGTCAGATTAGGCTTTACTTCCATGCTGTCCCTTCATCTCTTGCCCTCGTCCTCACTGATTGG
GCCAGCCATCTTGTTGACCAATACCACAGTTCCTTATTCCTCTGGCTTTTCTCATGGACTTCCA
GAATTCTAAAATTGACATGGCATCCCTTCCTTCTGCTTCCCCAGGAGTAATAGGAGCTATAGGG
AAAGCTAGGTTTTAGCACAGAGTGTCACCTGGGCAGATAAGCAGCTTTTTCTGTCTAGGTGACA
TGCTGACTCAGATGTCCTTCAGTCAGAGCAGCAAGTGACACTTAGCAGCTCGTCCTACGGTCAG
CCCTGATGGCAGTGAGGGAGGCCAGGACTGGTGCTTTTGCTGGCTTGCTCTCTGCAATCTGCCT
TGCCTGGGATTTTATCTCAGTGTCCTGTAAATGTACCCACTTTGGTAAACCCTATTCTATCTTG
GGTCTGGAAAGCCTTGGCCCCTAATGCTGCCCACATGTGGGGAACATTGCCTCCTCAGGGCTTG
ATTTGATGAAGTCTTGGCTCCAGAAGGCCCCTGCTGCTCTAGTGAAAGTCATGACCATTCCATG
ATGATCAGTGGCCCTGGCCTGCATGGTAAGGTGGAAAGAACCCCTTCTCTTGGAGCCTTGAGCA
GAAACACTGCAGCATCCTGGAGCTGGGTGGTCCTCAAGCAGACCCCATCCCTGTCTCCTGACCT
GAAGGAAATGTGCACAGAGAAGCCACCTCTATGTAGGAGTTTAGAATCTGACCAGCCGTCTTCT
CTCTCACAGATGGGCGTAGGCTGTGCTGTGTGGTTTTCCCTTGGGGGGGCGGGAGCAAGGAGAA
GTATTTGTAGCTTGTTTTATAAAAAATAAAAAAAAATGGATAAATCTTG

hide sequence

RefSeq Acc Id:

XM_063261932 ⟹ XP_063118002

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	106,432,592 - 106,577,200 (+)	NCBI

RefSeq Acc Id:

XM_063261933 ⟹ XP_063118003

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	106,549,624 - 106,593,951 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001002835	(Get FASTA)	NCBI Sequence Viewer
	NP_001399245	(Get FASTA)	NCBI Sequence Viewer
	XP_006240346	(Get FASTA)	NCBI Sequence Viewer
	XP_006240347	(Get FASTA)	NCBI Sequence Viewer
	XP_063118002	(Get FASTA)	NCBI Sequence Viewer
	XP_063118003	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	CAE51395	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000007947.8
	ENSRNOP00000086850
	ENSRNOP00000086850.1

RefSeq Acc Id:	NP_001002835 ⟸ NM_001002835
- Peptide Label:	isoform 1 precursor
- UniProtKB:	Q6IE50 (UniProtKB/TrEMBL), F1LSF2 (UniProtKB/TrEMBL), A6JDL6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLPARVRLLTPHLLLLLVQLSPAGGHRTTGPRFLISDRDPPCNPHCPRTQPKPICASDGRSYES MCEYQRAKCRDPALAVVHRGRCKDAGQSKCRLERAQALEQAKKPQEAVFVPECGEDGSFTQVQC HTYTGYCWCVTPDGKPISGSSVQNKTPVCSGPVTDKPLSQGNSGRKDDGSKPTPTMETQPVFDG DEITAPTLWIKHLVIKDSKLNNTNVRNSEKVHSCDQERQSALEEARQNPREGIVIPECAPGGLY KPVQCHQSTGYCWCVLVDTGRPLPGTSTRYVMPSCESDARAKSVEVDDPFKDRELPGCPEGKKM EFITSLLDALTTDMVQAINSAAPTGGGRFSEPDPSHTLEERVAHWYFSQLDSNSSDDINKREMK PFKRYVKKKAKPKKCARRFTDYCDLNKDKAISLPELKGCLGVSKEGGSLGSFPQGKRAGTNPFI GRLV hide sequence

RefSeq Acc Id:	XP_006240346 ⟸ XM_006240284
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5ZYF0 (UniProtKB/TrEMBL), A6JDL6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLPARVRLLTPHLLLLLVQLSPAGGHRTTGPRFLISDRDPPCNPHCPRTQPKPICASDGRSYES MCEYQRAKCRDPALAVVHRGRCKDAGQSKCRLERAQALEQAKKPQEAVFVPECGEDGSFTQVQC HTYTGYCWCVTPDGKPISGSSVQNKTPVCSGPVTDKPLSQGNSGRKVSFRFFLTLNSDDGSKPT PTMETQPVFDGDEITAPTLWIKHLVIKDSKLNNTNVRNSEKVHSCDQERQSALEEARQNPREGI VIPECAPGGLYKPVQCHQSTGYCWCVLVDTGRPLPGTSTRYVMPSCESDARAKSVEVDDPFKDR ELPGCPEGKKMEFITSLLDALTTDMVQAINSAAPTGGGRFSEPDPSHTLEERVAHWYFSQLDSN SSDDINKREMKPFKRYVKKKAKPKKCARRFTDYCDLNKDKAISLPELKGCLGVSKEGGSLGSFP QGKRAGTNPFIGRLV hide sequence

RefSeq Acc Id:	XP_006240347 ⟸ XM_006240285
- Peptide Label:	isoform X2
- UniProtKB:	A6JDL6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLPARVRLLTPHLLLLLVQLSPAGGHRTTGPRFLISDRDPPCNPHCPRTQPKPICASDGRSYES MCEYQRAKCRDPALAVVHRGRCKDAGQSKCRLERAQALEQAKKPQEAVFVPECGEDGSFTQVQC HTYTGYCWCVTPDGKPISGSSVQNKTPVCSGPVTDKPLSQGNSGRKVSFRFFLTLNSDDGSKPT PTMETQPVFDGDEITAPTLWIKHLVIKDSKLNNTNVRNSEKVHSCDQERQSALEEARQNPREGI VIPECAPGGLYKPVQCHQSTGYCWCVLVDTGRPLPGTSTRYVMPSCESDARAKSVEVDDPFKDR ELPGCPEGKKMEFITSLLDALTTDMVQAINSAAPTGGGRFSEPDPSHTLEERVAHWYFSQLDSN SSDDINKREMKPFKRYVKKKAKPKKCARRFTDYCDLNKDKAISLPELKGCLGVSKEVGRLV hide sequence

Ensembl Acc Id:

ENSRNOP00000007947 ⟸ ENSRNOT00000007947

Ensembl Acc Id:

ENSRNOP00000086850 ⟸ ENSRNOT00000114143

Ensembl Acc Id:

ENSRNOP00000084098 ⟸ ENSRNOT00000101574

RefSeq Acc Id:	NP_001399245 ⟸ NM_001412316
- Peptide Label:	isoform 2 precursor
- UniProtKB:	A0A8I6A4M6 (UniProtKB/TrEMBL), A6JDL6 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063118002 ⟸ XM_063261932
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_063118003 ⟸ XM_063261933
- Peptide Label:	isoform X4

Protein Domains

Kazal-like Thyroglobulin type-1

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q6IE50-F1-model_v2	AlphaFold	Q6IE50	1-452	view protein structure

Transcriptome

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

Promoters

RGD ID:

13694703

Promoter ID:

EPDNEW_R5228

Type:

multiple initiation site

Name:

Smoc1_1

Description:

SPARC related modular calcium binding 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	6	104,718,417 - 104,718,477	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1303126	AgrOrtholog
BioCyc Gene	G2FUF-36900	BioCyc
Ensembl Genes	ENSRNOG00000005998	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000007947.9	UniProtKB/TrEMBL
	ENSRNOT00000114143	ENTREZGENE
	ENSRNOT00000114143.2	UniProtKB/TrEMBL
Gene3D-CATH	3.30.60.30	UniProtKB/TrEMBL
	4.10.800.10	UniProtKB/TrEMBL
	EF-hand	UniProtKB/TrEMBL
InterPro	Dev_reg/Prot_inhib	UniProtKB/TrEMBL
	EF-hand-like_dom	UniProtKB/TrEMBL
	EF_Hand_1_Ca_BS	UniProtKB/TrEMBL
	Kazal_dom_sf	UniProtKB/TrEMBL
	Prot_inh_Kazal	UniProtKB/TrEMBL
	SMOC1_EC	UniProtKB/TrEMBL
	SPARC/Testican_Ca-bd-dom	UniProtKB/TrEMBL
	Thyroglobulin_1	UniProtKB/TrEMBL
	Thyroglobulin_1_sf	UniProtKB/TrEMBL
KEGG Report	rno:314280	UniProtKB/TrEMBL
NCBI Gene	314280	ENTREZGENE
PANTHER	SECRETED MODULAR CALCIUM-BINDING PROTEIN	UniProtKB/TrEMBL
	SPARC-RELATED MODULAR CALCIUM-BINDING PROTEIN 1	UniProtKB/TrEMBL
Pfam	Kazal_2	UniProtKB/TrEMBL
	SPARC_Ca_bdg	UniProtKB/TrEMBL
	Thyroglob_assoc	UniProtKB/TrEMBL
	Thyroglobulin_1	UniProtKB/TrEMBL
PhenoGen	Smoc1	PhenoGen
PROSITE	EF_HAND_1	UniProtKB/TrEMBL
	KAZAL_2	UniProtKB/TrEMBL
	THYROGLOBULIN_1_1	UniProtKB/TrEMBL
	THYROGLOBULIN_1_2	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000005998	RatGTEx
SMART	KAZAL	UniProtKB/TrEMBL
	SM00211	UniProtKB/TrEMBL
Superfamily-SCOP	SSF100895	UniProtKB/TrEMBL
	SSF47473	UniProtKB/TrEMBL
	Thyroglobulin_1	UniProtKB/TrEMBL
UniProt	A0A8I5ZYF0	ENTREZGENE
	A0A8I6A4M6	ENTREZGENE, UniProtKB/TrEMBL
	A0A8J8Y7C5_RAT	UniProtKB/TrEMBL
	A6JDL6	ENTREZGENE, UniProtKB/TrEMBL
	F1LSF2	ENTREZGENE
	Q6IE50	ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary	F1LSF2	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-07	Smoc1	SPARC related modular calcium binding 1	Smoc1	SPARC-related modular calcium binding protein 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-02-14	Smoc1	SPARC-related modular calcium binding protein 1			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

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