Vit (vitrin) - Rat Genome Database

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

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Gene: Vit (vitrin) Rattus norvegicus

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Symbol:

Vit

Name:

vitrin

RGD ID:

1564128

Description:

Predicted to enable glycosaminoglycan binding activity. Predicted to be involved in extracellular matrix organization; positive regulation of cell-substrate adhesion; and spinal cord development. Predicted to be located in extracellular matrix. Predicted to be active in interstitial matrix. Orthologous to human VIT (vitrin); INTERACTS WITH bisphenol A; cadmium dichloride; Cuprizon.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC313831; RGD1564128; similar to vitrin

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):	VIT (vitrin)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, Treefam
Mus musculus (house mouse):	Vit (vitrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Vit (vitrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	VIT (vitrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	VIT (vitrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Vit (vitrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	VIT (vitrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	VIT (vitrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Vit (vitrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	VIT (vitrin)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Vit (vitrin)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	C16E9.1	Alliance	DIOPT (Hieranoid\|SonicParanoid)
Danio rerio (zebrafish):	vit	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	vit	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	22,198,095 - 22,317,758 (-)	NCBI		GRCr8
mRatBN7.2	6	16,445,966 - 16,565,644 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	16,445,955 - 16,565,665 (-)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	6	1,091,817 - 1,208,888 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	1,147,012 - 1,208,392 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	1,083,150 - 1,199,622 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	1,319,479 - 1,399,647 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	6	16,094,236 - 16,211,803 (-)	NCBI		Celera
Cytogenetic Map	6	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

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

3,4-methylenedioxymethamphetamine (ISO)

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

3-methylcholanthrene (ISO)

Aflatoxin B2 alpha (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

cadmium dichloride (EXP)

cisplatin (ISO)

Cuprizon (EXP)

cyclosporin A (ISO)

dexamethasone (ISO)

diarsenic trioxide (ISO)

diethylstilbestrol (ISO)

doxorubicin (ISO)

folic acid (ISO)

genistein (ISO)

indometacin (ISO)

methotrexate (ISO)

methoxychlor (EXP)

nickel atom (ISO)

nickel sulfate (ISO)

paclitaxel (ISO)

phorbol 13-acetate 12-myristate (ISO)

potassium bromate (ISO)

progesterone (ISO)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

silicon dioxide (ISO)

sodium fluoride (EXP)

sulforaphane (ISO)

titanium dioxide (ISO)

topotecan (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

trimellitic anhydride (ISO)

valproic acid (ISO)

vincristine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

extracellular matrix organization (IBA,ISO)

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

spinal cord development (ISO)

Cellular Component

extracellular matrix (ISO)

interstitial matrix (IBA,ISO)

Molecular Function

glycosaminoglycan 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.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:18757743	PMID:25331329

Genomics

Comparative Map Data

Vit
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	22,198,095 - 22,317,758 (-)	NCBI		GRCr8
mRatBN7.2	6	16,445,966 - 16,565,644 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	16,445,955 - 16,565,665 (-)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	6	1,091,817 - 1,208,888 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	1,147,012 - 1,208,392 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	1,083,150 - 1,199,622 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	1,319,479 - 1,399,647 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	6	16,094,236 - 16,211,803 (-)	NCBI		Celera
Cytogenetic Map	6	q12	NCBI

VIT
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	36,696,707 - 36,814,794 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	36,696,690 - 36,814,794 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	36,923,850 - 37,041,937 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	36,777,418 - 36,895,433 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	36,835,564 - 36,953,580	NCBI
Celera	2	36,764,899 - 36,882,980 (+)	NCBI		Celera
Cytogenetic Map	2	p22.2	NCBI
HuRef	2	36,664,350 - 36,808,557 (+)	NCBI		HuRef
CHM1_1	2	36,853,402 - 36,971,176 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	36,703,628 - 36,821,971 (+)	NCBI		T2T-CHM13v2.0

Vit
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	78,815,480 - 78,934,838 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	78,815,493 - 78,934,837 (+)	Ensembl		GRCm39 Ensembl
GRCm38	17	78,508,051 - 78,627,409 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	78,508,064 - 78,627,408 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	78,907,480 - 79,026,738 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	78,413,198 - 78,532,456 (+)	NCBI		MGSCv36	mm8
Celera	17	82,812,373 - 82,934,688 (+)	NCBI		Celera
Cytogenetic Map	17	E3	NCBI
cM Map	17	49.38	NCBI

Vit
(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_004955441	4,546,984 - 4,649,962 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955441	4,527,281 - 4,650,384 (+)	NCBI	ChiLan1.0	ChiLan1.0

VIT
(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	12	89,665,711 - 89,780,489 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	89,669,694 - 89,784,465 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	36,726,717 - 36,841,491 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	37,490,294 - 37,604,177 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	37,490,294 - 37,604,177 (+)	Ensembl	panpan1.1		panPan2

VIT
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	29,142,924 - 29,259,800 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	29,143,069 - 29,243,406 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	28,956,626 - 29,062,499 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	29,793,055 - 29,897,704 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	29,793,067 - 29,899,491 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	29,021,084 - 29,125,612 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	29,082,651 - 29,187,237 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	29,301,977 - 29,406,620 (+)	NCBI		UU_Cfam_GSD_1.0

Vit
(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_024406292	42,737,221 - 42,842,844 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936663	1,403,128 - 1,484,353 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936663	1,402,713 - 1,508,253 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

VIT
(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	103,377,575 - 103,492,985 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	103,379,127 - 103,492,989 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	109,958,866 - 110,020,029 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

VIT
(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	14	70,593,305 - 70,725,537 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	70,593,739 - 70,688,664 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666045	41,232,217 - 41,360,522 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Vit
(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_004624738	18,358,372 - 18,447,689 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624738	18,339,587 - 18,448,639 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Vit
856 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	50
Count of miRNA genes:	48
Interacting mature miRNAs:	49
Transcripts:	ENSRNOT00000006360
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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
8552962	Pigfal16	Plasma insulin-like growth factor 1 level QTL 16	9.4		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	6	1	41223769	Rat
1549905	Stresp10	Stress response QTL 10	6.83	0.0066	stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	6	1	27574569	Rat
8693699	Alc37	Alcohol consumption QTL 37	2.6	0.224	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	6	7964167	21301982	Rat
10401812	Kidm54	Kidney mass QTL 54			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	6	14368788	59368788	Rat
1331743	Uae28	Urinary albumin excretion QTL 28	4.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	6	1	34235784	Rat
2292589	Emca10	Estrogen-induced mammary cancer QTL 10		0.048	mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	6	16536140	61536140	Rat
10401800	Kidm49	Kidney mass QTL 49			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	6	14368788	59368788	Rat
1300164	Rf15	Renal function QTL 15	3.12		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	6	5074497	54641141	Rat
9589129	Insul24	Insulin level QTL 24	19.06	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	6	1	41223769	Rat
1578758	Tcas9	Tongue tumor susceptibility QTL 9	3.29		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	6	1	37618905	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	10894415	110548006	Rat
7411603	Foco13	Food consumption QTL 13	5.5	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	6	1	41223769	Rat
1598843	Cm63	Cardiac mass QTL 63	2.6		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	6	1	39036266	Rat
738024	Sach5	Saccharine consumption QTL 5	3.9	0.00039	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	6	1	43394190	Rat
7411542	Bw127	Body weight QTL 127	5.5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	1	41223769	Rat
2293706	Bmd20	Bone mineral density QTL 20	4.3	0.0002	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	6	5074497	19988050	Rat
9589048	Scfw3	Subcutaneous fat weight QTL 3	4.57	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	6	1	41223769	Rat
2292616	Ept15	Estrogen-induced pituitary tumorigenesis QTL 15	4.4		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	6	9843312	20338915	Rat
738023	Alc17	Alcohol consumption QTL 17	3.1	0.003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	6	1	27574569	Rat
1354616	Despr12	Despair related QTL 12		0.0012	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	6	1	27574569	Rat
1576309	Emca7	Estrogen-induced mammary cancer QTL 7	4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	15107216	107351382	Rat
2293709	Bss23	Bone structure and strength QTL 23	5.18	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	6	1	42487980	Rat
2293650	Bss31	Bone structure and strength QTL 31	5.05	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	6	1	42487980	Rat
7411584	Foco4	Food consumption QTL 4	4.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	6	1	42838846	Rat
1578665	Bss16	Bone structure and strength QTL 16	4.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	6	11735669	72593685	Rat
2300176	Bmd51	Bone mineral density QTL 51	11.7	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	6	1	27574569	Rat
1300128	Rf16	Renal function QTL 16	3.89		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	6	5074497	34434305	Rat
1578668	Bmd14	Bone mineral density QTL 14	3.8		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	6	11735669	72593685	Rat
2301972	Bp325	Blood pressure QTL 325	4.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	6	1	72227641	Rat
2293656	Bss28	Bone structure and strength QTL 28	6.79	0.0001	femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	6	1	42487980	Rat
1358190	Ept1	Estrogen-induced pituitary tumorigenesis QTL 1	4.4		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	6	9843312	20338915	Rat
1359023	Bp272	Blood pressure QTL 272	2.5		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	16536140	27261739	Rat
1354664	Slep2	Serum leptin concentration QTL 2	4.49		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	6	16536140	71636405	Rat
2300190	Bmd52	Bone mineral density QTL 52	11.2	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	6	1	27574569	Rat
8693690	Alc35	Alcohol consumption QTL 35	2.2	0.606	drinking behavior trait (VT:0001422)	calculated ethanol drink intake rate (CMO:0001615)	6	7964167	21301982	Rat

Markers in Region

D6Rat40

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	16,536,243 - 16,536,392 (-)	MAPPER	mRatBN7.2
Rnor_6.0	6	1,120,393 - 1,120,541	NCBI	Rnor6.0
Rnor_5.0	6	1,111,498 - 1,111,646	UniSTS	Rnor5.0
RGSC_v3.4	6	1,301,953 - 1,302,101	UniSTS	RGSC3.4
RGSC_v3.4	6	1,301,952 - 1,302,101	RGD	RGSC3.4
RGSC_v3.1	6	1,301,953 - 1,302,101	RGD
Celera	6	16,183,650 - 16,183,798	UniSTS
RH 3.4 Map	6	29.0	UniSTS
RH 3.4 Map	6	29.0	RGD
RH 2.0 Map	6	124.4	RGD
SHRSP x BN Map	6	18.3798	RGD
Cytogenetic Map	6	q11	UniSTS

D6Rat80

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	16,536,140 - 16,536,392 (-)	MAPPER	mRatBN7.2
Rnor_6.0	6	1,120,393 - 1,120,644	NCBI	Rnor6.0
Rnor_5.0	6	1,111,498 - 1,111,749	UniSTS	Rnor5.0
RGSC_v3.4	6	1,301,952 - 1,302,204	RGD	RGSC3.4
RGSC_v3.4	6	1,301,953 - 1,302,204	UniSTS	RGSC3.4
RGSC_v3.1	6	1,301,953 - 1,302,204	RGD
Celera	6	16,183,547 - 16,183,798	UniSTS
RH 3.4 Map	6	23.9	UniSTS
RH 3.4 Map	6	23.9	RGD
RH 2.0 Map	6	122.3	RGD
SHRSP x BN Map	6	18.3999	RGD
Cytogenetic Map	6	q11	UniSTS
Cytogenetic Map	6	q14	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	11	28	113	35	34	4	19	4	6	121	70	93	30	54	30

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001431887	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008764427	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008776185	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039113076	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473947	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000006360 ⟹ ENSRNOP00000006360

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	16,445,955 - 16,541,126 (-)	Ensembl
Rnor_6.0 Ensembl	6	1,147,012 - 1,208,392 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000098785 ⟹ ENSRNOP00000081700

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	16,445,955 - 16,565,665 (-)	Ensembl

RefSeq Acc Id:

XM_008764427 ⟹ XP_008762649

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	22,198,095 - 22,317,758 (-)	NCBI
mRatBN7.2	6	16,445,966 - 16,565,644 (-)	NCBI
Rnor_6.0	6	1,091,817 - 1,208,888 (+)	NCBI

Sequence:

show sequence

TGTGTTACAAAATGAGCCTTCCAAAGGGCTGAGAGGTGGATGGGAATGTTTGCTTAGCTCGCCT
GAGAAGAGAAAAGATTCCTCGACCTCCTCTTGCTTCTTCTTTAGAATAATTTGGATGGGATTTG
TGATGCAGAAACGCTTAAAGAAAAAAGGATAACCATTCTTTGTGGTGGAAAGTTTAGGGCGGAA
AAAAAAACCCCACTGCTTTCTTCAAACAAGGGTGCCATTTTGATATTTATGGGAATTTTTGTTG
TGCTCACTATGAAGGCGTCTGTTATTGAAGTGTTGCTTGTTTTGCTGGTAACTGGAATACATTC
AAATAAAGAACCGGCAAAGAAGGTTAAAAGACCCAAATTCACTGTGCCTCAGATCAACTGTGAT
GTCAAAGCTGGAAAGATCATCAATCCTGAGTTCCTGGTGAAATGTCCAGCGGGTTGCCAAGACC
CCAAATACCATGTTTACGGCACTGGCGTCTACGCGTCTTACTCCAGCGTGTGTGGTGCCGCAGT
TCACAGCGGTGTGCTGGATGATTCAGGAGGGAAGATACTTGTTCGGAAAGTTGCTGGGCAGTCC
TTTTACAAAGGAAGCTACTCGAACGGAGTTCAGTCTTTATCCTTACCCAGGTGGAGAGAGTCCT
TTGTCGTCTCAGAGAGTAAGCCCCAAAAGGGAGTAACCTATCCATCAACTCTTACATATTCATC
ACCCAAAACTGCAGCGGCTAACGCAGGTGAGACCACAAAAGCCTATGAGAAGCCATCTCTTCCA
GGGACAACCGCACAGCCTGTCACCCTGTCACAGGCTCTAGCTACCCCAGTAGCTGAAGCTACCC
ACAGAGCCACCTCAAAGCCATTTGCAGCATCTGTCACAAGCAGCTCCCGACCCCAACCTGTGGG
CCACAGGAGTCAGGAGATGGAAGAGATGGCGACATGGAAGCCTGAACCAGTCCTTTTAGATTCA
GGATTTGTGCCAAAAGAAGAACTCAGCACACAGTCTTCGGAGCCAGTGTTGCAGGGAGACCCGA
ACTGCAAAATTGATTTGTCGTTCTTAATTGACGGGAGCACCGGCATCGGCAAGCGCCGCTTCCA
GATCCAGAAGCAGTTCCTAGTGGATGTCGTCCAGGCTCTGGACATCGGCCCTGGTGGTCCCCTC
GTGGGTGTTGTTCAGTACGGAGACAACCCTGCTACCCAGTTTAACCTTAAAACTCACATGAATT
CTCAAGATCTGAAGACAGCTATAGAGAAAATTACCCAGAGAGGAGGCCTTTCTAATGTAGGCCG
CGCCATCTCCTTTGTAACCAAGAACTTCTTTTCCAAAGCAAATGGAAACAGGGGTGGTGCTCCC
AATGTGGCTGTGGTCCTGGTGGATGGCGGGCCCACAGACAAAATAGAAGAGGTGTCACGAGTTG
CAAGAGAGTCGGGGATCAATGTCTTCTTTGTCACCGTCGAAGGGGCTGCTGAAAGGGAGAAGCA
GCATGTGGTGGAGCCCAATTTTGCCAGCAAGGCAGTGTGCAGAACAAATGGCTTCTACTCCTTC
AACGTGCAGAGCTGGCTCAGCCTGCACAAGACCGTGCAGCCCCTGGTGAAGCGAGTCTGCGACA
CTGACCGCCTCGCCTGCAGCAAGACCTGTTTAAACTCTGCCGACATAGGCTTTGTCATTGATGG
CTCAAGCAGCGTGGGGACAAGCAACTTCCGCACGGTCCTGCAGTTCGTGGCCAACCTCAGCAAG
GAGTTTGAGATTTCAGACACCGACACTCGCATCGGGGCCGTGCAGTACACCTATGAGCAGCGGC
TGGAATTCGGGTTCGACAAGTATAACAGCAAAGCCGACGTCCTCAGTGCCATCAGGAGGGTGGG
GTACTGGAGCGGGGGCACCAGCACAGGGGCTGCCATCCAGTATGCCCTCGAACAACTCTTCAAG
AAGTCCAAACCGAACAAGAGGAAGGTAATGATCCTTATCACCGACGGCAGGTCTTACGATGACG
TGCGGATCCCAGCCATGGCTGCCTACCAGAAGGGGGTGATCACCTACGCAATAGGCATCGCATG
GGCTGCTCAGGACGAGCTGGAGGTAATTGCCACGCACCCTGCCAGGGACCACTCCTTCTTCGTG
GATGAGTTTGACAACCTCTACAAATTCGTCCCCAGGATCATCCGGAATATCTGTACAGAGTTCA
ACTCGCAGCCTCGAAACTGAGTTGGGAGCAGACAGAACAGCAAATGCTGTCTCACTGATCCTTG
GGACCATCCCCGGCATGGTCCGTATTTGGGGTTGGGGGGATGAGGGGGCGAGGGATGGCTCCGA
GAGAGCTTGGGAAAATGCACTGGGTGTTATTACTCTGCCACTGGTGGTGTAAATGCTTCAGAAC
CTACCAGTCAAAAGGCTGACTGTCAGCTCTCAGGTTGGGTTCAAATCCTGCATCGCCTTGTGTG
TGCTGAAGAGTCCACATTTCCACAGTTGTTTTCTAAATACGTATCCAGAGGAGAGTACAGCTCC
TATGACAGCAGAGGAGGGAGGGTACAGCTCCTATGACAGGAAAGCATTGAGCGTTTATGGGAAG
TTTGTTTACGTTTCTCATTAGAACTCTATAACTGTCCATAAGTTTCTTTTTATTGTGTTCTCCC
TTTTTTTTTTCCTTTTTTCTTTTTTGTCCTGAGAATGTGGGAACTGCTTAAATAAATGTTTCAA
AGAA

hide sequence

RefSeq Acc Id:

XM_039113076 ⟹ XP_038969004

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	22,198,095 - 22,230,912 (-)	NCBI
mRatBN7.2	6	16,445,966 - 16,478,754 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001418816	(Get FASTA)	NCBI Sequence Viewer
	XP_008762649	(Get FASTA)	NCBI Sequence Viewer
	XP_038969004	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM02817	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000006360.8
	ENSRNOP00000081700.1

RefSeq Acc Id:

XP_008762649 ⟸ XM_008764427

- Peptide Label:

isoform X1

- Sequence:

show sequence

MGIFVVLTMKASVIEVLLVLLVTGIHSNKEPAKKVKRPKFTVPQINCDVKAGKIINPEFLVKCP
AGCQDPKYHVYGTGVYASYSSVCGAAVHSGVLDDSGGKILVRKVAGQSFYKGSYSNGVQSLSLP
RWRESFVVSESKPQKGVTYPSTLTYSSPKTAAANAGETTKAYEKPSLPGTTAQPVTLSQALATP
VAEATHRATSKPFAASVTSSSRPQPVGHRSQEMEEMATWKPEPVLLDSGFVPKEELSTQSSEPV
LQGDPNCKIDLSFLIDGSTGIGKRRFQIQKQFLVDVVQALDIGPGGPLVGVVQYGDNPATQFNL
KTHMNSQDLKTAIEKITQRGGLSNVGRAISFVTKNFFSKANGNRGGAPNVAVVLVDGGPTDKIE
EVSRVARESGINVFFVTVEGAAEREKQHVVEPNFASKAVCRTNGFYSFNVQSWLSLHKTVQPLV
KRVCDTDRLACSKTCLNSADIGFVIDGSSSVGTSNFRTVLQFVANLSKEFEISDTDTRIGAVQY
TYEQRLEFGFDKYNSKADVLSAIRRVGYWSGGTSTGAAIQYALEQLFKKSKPNKRKVMILITDG
RSYDDVRIPAMAAYQKGVITYAIGIAWAAQDELEVIATHPARDHSFFVDEFDNLYKFVPRIIRN
ICTEFNSQPRN

hide sequence

Ensembl Acc Id:

ENSRNOP00000006360 ⟸ ENSRNOT00000006360

RefSeq Acc Id:	XP_038969004 ⟸ XM_039113076
- Peptide Label:	isoform X2
- UniProtKB:	A6H9W2 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000081700 ⟸ ENSRNOT00000098785

Protein Domains

LCCL VWFA

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-F1M095-F1-model_v2	AlphaFold	F1M095	1-616	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1564128	AgrOrtholog
BioCyc Gene	G2FUF-38484	BioCyc
Ensembl Genes	ENSRNOG00000004706	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000006360.8	UniProtKB/TrEMBL
	ENSRNOT00000098785.1	UniProtKB/TrEMBL
Gene3D-CATH	2.170.130.20	UniProtKB/TrEMBL
	3.40.50.410	UniProtKB/TrEMBL
InterPro	ECM_Assembly_Org	UniProtKB/TrEMBL
	LCCL	UniProtKB/TrEMBL
	LCCL_sf	UniProtKB/TrEMBL
	VWF_A	UniProtKB/TrEMBL
	vWFA_dom_sf	UniProtKB/TrEMBL
KEGG Report	rno:313831	UniProtKB/TrEMBL
NCBI Gene	313831	ENTREZGENE
PANTHER	COLLAGEN ALPHA	UniProtKB/TrEMBL
	VITRIN	UniProtKB/TrEMBL
Pfam	LCCL	UniProtKB/TrEMBL
	VWA	UniProtKB/TrEMBL
PhenoGen	Vit	PhenoGen
PRINTS	VWFADOMAIN	UniProtKB/TrEMBL
PROSITE	LCCL	UniProtKB/TrEMBL
	VWFA	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000004706	RatGTEx
SMART	LCCL	UniProtKB/TrEMBL
	VWA	UniProtKB/TrEMBL
Superfamily-SCOP	LCCL	UniProtKB/TrEMBL
	SSF53300	UniProtKB/TrEMBL
UniProt	A0A8I5ZT33	ENTREZGENE, UniProtKB/TrEMBL
	A6H9W2	ENTREZGENE, UniProtKB/TrEMBL
	F1M095_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-06	Vit	vitrin	RGD1564128_predicted	similar to vitrin (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-07	RGD1564128_predicted	similar to vitrin (predicted)	LOC313831	similar to vitrin	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC313831	similar to vitrin			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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