Tnfaip1 (TNF alpha induced protein 1)

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Gene: Tnfaip1 (TNF alpha induced protein 1) Rattus norvegicus

Analyze

Symbol:

Tnfaip1

Name:

TNF alpha induced protein 1

RGD ID:

3877

Description:

Predicted to contribute to ubiquitin-protein transferase activity. Involved in DNA replication and positive regulation of DNA replication. Predicted to localize to Cul3-RING ubiquitin ligase complex and endosome. Orthologous to human TNFAIP1 (TNF alpha induced protein 1); INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 4-amino-2,6-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

BTB/POZ domain-containing adapter for CUL3-mediated RhoA degradation protein 2; BTB/POZ domain-containing protein TNFAIP1; Edp1; tumor necrosis factor, alpha induced protein 1; tumor necrosis factor, alpha-induced protein 1; tumor necrosis factor, alpha-induced protein 1 (endothelial); tumor necrosis factor-induced protein 1

Orthologs:

Homo sapiens (human) : TNFAIP1 (TNF alpha induced protein 1) HGNC Alliance
Mus musculus (house mouse) : Tnfaip1 (tumor necrosis factor, alpha-induced protein 1 (endothelial)) MGI Alliance
Chinchilla lanigera (long-tailed chinchilla) : Tnfaip1 (TNF alpha induced protein 1)
Pan paniscus (bonobo/pygmy chimpanzee) : TNFAIP1 (TNF alpha induced protein 1)
Canis lupus familiaris (dog) : TNFAIP1 (TNF alpha induced protein 1)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Tnfaip1 (TNF alpha induced protein 1)
Sus scrofa (pig) : TNFAIP1 (TNF alpha induced protein 1)
Chlorocebus sabaeus (African green monkey) : TNFAIP1 (TNF alpha induced protein 1)
Heterocephalus glaber (naked mole-rat) : Tnfaip1 (TNF alpha induced protein 1)

more info ...

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	TNFAIP1 (TNF alpha induced protein 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Tnfaip1 (tumor necrosis factor, alpha-induced protein 1 (endothelial))	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Tnfaip1 (TNF alpha induced protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TNFAIP1 (TNF alpha induced protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TNFAIP1 (TNF alpha induced protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tnfaip1 (TNF alpha induced protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TNFAIP1 (TNF alpha induced protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	TNFAIP1 (TNF alpha induced protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tnfaip1 (TNF alpha induced protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	TNFAIP1 (TNF alpha induced protein 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Tnfaip1 (tumor necrosis factor, alpha-induced protein 1 (endothelial))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	tnfaip1 (tumor necrosis factor, alpha-induced protein 1 (endothelial))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	CG10465	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	B0281.4	Alliance	DIOPT (OrthoFinder\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	B0281.5	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	B0281.6	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	C17F4.8	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	C40A11.2	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	C40A11.3	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	C40A11.4	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	C40A11.6	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	C40A11.7	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	D2045.8	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	F22E5.11	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	F22E5.12	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|TreeFam)
Caenorhabditis elegans (roundworm):	F22E5.6	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	F22E5.8	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	K02F6.5	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	K02F6.8	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	T05E12.3	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	T08G3.13	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ZC239.14	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ZC239.15	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ZC239.16	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|TreeFam)
Caenorhabditis elegans (roundworm):	ZC239.2	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ZC239.3	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|TreeFam)
Caenorhabditis elegans (roundworm):	ZC239.4	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ZC239.5	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ZC239.6	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	sdz-35	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	F18A11.5	Alliance	DIOPT (OrthoFinder\|PANTHER\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	10	65,791,002 - 65,805,693 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	65,791,003 - 65,805,693 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	65,837,922 - 65,853,370 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	64,632,189 - 64,646,879 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	64,647,455 - 64,660,389 (-)	NCBI
Celera	10	62,394,329 - 62,409,019 (-)	NCBI		Celera
Cytogenetic Map	10	q25	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Diabetic Nephropathies (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(-)-citrinin (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

1H-pyrazole (ISO)

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

2,4-dinitrotoluene (EXP)

2-methylcholine (ISO)

4-amino-2,6-dinitrotoluene (EXP)

4-hydroxyphenyl retinamide (ISO)

all-trans-retinoic acid (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

cadmium dichloride (EXP)

clofibric acid (EXP)

cobalt dichloride (ISO)

coumestrol (ISO)

diazinon (ISO)

dibutyl phthalate (ISO)

Enterolactone (ISO)

folic acid (ISO)

ketamine (EXP)

lipopolysaccharide (ISO)

N-nitrosodiethylamine (EXP)

nickel atom (ISO)

ochratoxin A (ISO)

oxaliplatin (EXP)

p-menthan-3-ol (ISO)

paracetamol (ISO)

pirinixic acid (ISO)

rotenone (EXP)

streptozocin (EXP)

tetrachloromethane (EXP,ISO)

topotecan (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell migration (ISO,ISS)

immune response (ISO,ISS)

negative regulation of Rho protein signal transduction (IBA,ISO,ISS)

positive regulation of DNA replication (IDA)

proteasome-mediated ubiquitin-dependent protein catabolic process (IBA,ISO,ISS)

protein homooligomerization (IEA)

protein ubiquitination (IBA,IEA,ISO,ISS)

stress fiber assembly (ISO,ISS)

Cellular Component

Cul3-RING ubiquitin ligase complex (IBA,ISO,ISS)

cytoplasm (ISO,ISS)

endosome (ISO,ISS)

nucleus (IEA)

Molecular Function

cyclin binding (IPI)

GTP-Rho binding (IBA,ISO,ISS)

identical protein binding (ISO)

protein binding (IPI,ISO)

ubiquitin-protein transferase activity (IBA,ISO,ISS)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Link CD, etal., Neurobiol Aging 2003 May-Jun;24(3):397-413.
3.	MGD data from the GO Consortium
4.	RGD automated data pipeline
5.	RGD automated import pipeline for gene-chemical interactions
6.	Sun SH, etal., Int Immunol 1999 Apr;11(4):529-34
7.	Zhou J, etal., J Exp Zoolog A Comp Exp Biol 2005 Mar 1;303(3):227-40.

Additional References at PubMed

PMID:1370465	PMID:12477932	PMID:19637314	PMID:19782033	PMID:25416956	PMID:29115665

Genomics

Candidate Gene Status

	Tnfaip1 is a candidate Gene for QTL Eau3
	Tnfaip1 is a candidate Gene for QTL Pia10
	Tnfaip1 is a candidate Gene for QTL Ciaa2

Comparative Map Data

Tnfaip1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	10	65,791,002 - 65,805,693 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	65,791,003 - 65,805,693 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	65,837,922 - 65,853,370 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	64,632,189 - 64,646,879 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	64,647,455 - 64,660,389 (-)	NCBI
Celera	10	62,394,329 - 62,409,019 (-)	NCBI		Celera
Cytogenetic Map	10	q25	NCBI

TNFAIP1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	17	28,335,602 - 28,347,009 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	17	28,335,671 - 28,347,009 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	17	26,662,548 - 26,674,035 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	23,686,913 - 23,698,160 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	17	23,686,912 - 23,698,160	NCBI
Celera	17	23,524,290 - 23,535,780 (+)	NCBI
Cytogenetic Map	17	q11.2	NCBI
HuRef	17	22,870,942 - 22,882,432 (+)	NCBI		HuRef
CHM1_1	17	26,725,440 - 26,736,930 (+)	NCBI		CHM1_1

Tnfaip1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	78,413,676 - 78,427,122 (-)	NCBI
GRCm38	11	78,522,850 - 78,536,270 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	78,522,850 - 78,536,332 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	78,336,352 - 78,349,762 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	78,339,043 - 78,352,389 (-)	NCBI			mm8
Celera	11	88,154,923 - 88,168,333 (-)	NCBI		Celera
Cytogenetic Map	11	B5	NCBI
cM Map	11	46.74	NCBI

Tnfaip1
(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_004955481	4,786,015 - 4,799,274 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955481	4,786,015 - 4,799,376 (-)	NCBI	ChiLan1.0	ChiLan1.0

TNFAIP1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	17	28,929,788 - 28,941,278 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	17	28,929,788 - 28,941,278 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	17	28,427,448 - 28,438,826 (-)	NCBI

TNFAIP1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	9	42,588,112 - 42,595,596 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	9	42,588,009 - 42,597,961 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Tnfaip1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936538	4,491,915 - 4,503,887 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TNFAIP1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	12	44,616,916 - 44,629,934 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	44,616,840 - 44,626,330 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	12	46,529,322 - 46,538,741 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TNFAIP1
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1 Ensembl	16	22,102,531 - 22,115,451 (+)	Ensembl
ChlSab1.1	16	22,102,499 - 22,111,739 (+)	NCBI

Tnfaip1
(Heterocephalus glaber - naked mole-rat)

No map positions available.

Position Markers

D11Seg36

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	10	65,793,700 - 65,793,813	NCBI	Rnor6.0
Rnor_5.0	10	65,849,807 - 65,849,920	UniSTS	Rnor5.0
RGSC_v3.4	10	64,634,887 - 64,635,000	UniSTS	RGSC3.4
Celera	10	62,397,027 - 62,397,140	UniSTS
Cytogenetic Map	10	q25	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631554	Bp133	Blood pressure QTL 133		0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	764421	66221621	Rat
8662860	Vetf10	Vascular elastic tissue fragility QTL 10			artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	10	6229095	75983805	Rat
61427	Cia16	Collagen induced arthritis QTL 16	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	6429075	99492409	Rat
2303118	Mamtr7	Mammary tumor resistance QTL 7		0.003	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	10	9841807	108540162	Rat
2301967	Cm73	Cardiac mass QTL 73	4.55		heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	10	14827894	92423564	Rat
631268	Cia21	Collagen induced arthritis QTL 21	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	14827894	107857673	Rat
2316949	Gluco60	Glucose level QTL 60	3.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	14827894	110992275	Rat
1554317	Bmd4	Bone mineral density QTL 4	9.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	20170031	102897474	Rat
70223	Bp57	Blood pressure QTL 57	5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	21523906	83549467	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	21523906	90312401	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	21523906	90312401	Rat
70198	BpQTLcluster9	Blood pressure QTL cluster 9	2.94		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	21523906	90312401	Rat
724556	Pur2	Proteinuria QTL 2	5.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	22901497	93886300	Rat
1331762	Rf40	Renal function QTL 40	3.873		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	10	23861015	66539843	Rat
1331791	Cm31	Cardiac mass QTL 31	3.84606		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	23861015	112626471	Rat
631267	Cia20	Collagen induced arthritis QTL 20	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
61325	Aia5	Adjuvant induced arthritis QTL 5		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
61354	Pia10	Pristane induced arthritis QTL 10		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24483076	107857673	Rat
1298069	Bp168	Blood pressure QTL 168	5.5		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	10	27237530	101482600	Rat
631542	Bp82	Blood pressure QTL 82	6.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	27237530	102427718	Rat
2300171	Bmd58	Bone mineral density QTL 58	4.9	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	10	28789280	73789280	Rat
2292441	Bp308	Blood pressure QTL 308			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30099909	75099909	Rat
10402859	Bp381	Blood pressure QTL 381		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30099909	75099909	Rat
724527	Bp148	Blood pressure QTL 148		0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	30983805	75983805	Rat
1576311	Pia26	Pristane induced arthritis QTL 26			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	31919397	78343192	Rat
1578779	Tcas10	Tongue tumor susceptibility QTL 10	3.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	10	33179030	78179030	Rat
631557	Bp136	Blood pressure QTL 136		0.003	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	33343192	78343192	Rat
1576319	Cia29	Collagen induced arthritis QTL 29			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	35139424	80139424	Rat
6893342	Cm78	Cardiac mass QTL 78	0.1	0.88	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	10	36185929	82675365	Rat
631552	Vetf2	Vascular elastic tissue fragility QTL 2	4.5	0.0002	aorta elastic tissue integrity trait (VT:0010556)	artery internal elastic lamina non-tumorous lesion count (CMO:0001913)	10	36185929	95845311	Rat
1358897	Stresp6	Stress response QTL 6	4.17	0.022	blood norepinephrine amount (VT:0005663)	plasma norepinephrine level (CMO:0001010)	10	36584373	66539843	Rat
61441	Btemp1	Thermal response to stress QTL 1	4		body temperature trait (VT:0005535)	core body temperature (CMO:0001036)	10	36584560	66015527	Rat
2317042	Aia20	Adjuvant induced arthritis QTL 20	3.38		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	40514044	85514044	Rat
2317043	Aia7	Adjuvant induced arthritis QTL 7	3.82		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	40514044	85514044	Rat
1576308	Schws1	Schwannoma susceptibility QTL 1		0.0041	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	10	41260363	106105607	Rat
631269	Cia22	Collagen induced arthritis QTL 22	8.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	41260363	107857673	Rat
631270	Cia23	Collagen induced arthritis QTL 23	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	41260363	107857673	Rat
8552805	Bw145	Body weight QTL 145	2.2		body mass (VT:0001259)	change in body weight to body weight ratio (CMO:0002216)	10	43188659	81042642	Rat
1298078	Stresp5	Stress response QTL 5	2.99	0.00025	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	43289657	108540162	Rat
61463	Bp12	Blood pressure QTL 12	6.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	43704955	88704955	Rat
2300218	Hpcl2	Hepatic cholesterol level QTL 2			liver cholesterol amount (VT:0010498)	liver cholesterol level (CMO:0001597)	10	46593021	98939209	Rat
9589030	Epfw9	Epididymal fat weight QTL 9	19.24	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	10	46848346	91848346	Rat
7411614	Foco18	Food consumption QTL 18		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	10	46848346	91848346	Rat
8694173	Bw149	Body weight QTL 149	4.38	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	10	46848346	91848346	Rat
631547	Bp87	Blood pressure QTL 87	4.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	50638337	95638337	Rat
2293652	Bmd22	Bone mineral density QTL 22	4.9	0.0001	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	10	51289203	84596393	Rat
2293669	Bmd33	Bone mineral density QTL 33	4.5	0.0001	femur strength trait (VT:0010010)	femoral neck polar moment of inertia (CMO:0001670)	10	51289203	84596393	Rat
2293679	Bmd30	Bone mineral density QTL 30	3.5	0.0001	femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	10	51289203	84596393	Rat
2293705	Bmd25	Bone mineral density QTL 25	7.1	0.0001	femur mineral mass (VT:0010011)	cortical volumetric bone mineral density (CMO:0001730)	10	51289203	84596393	Rat
7207811	Bmd90	Bone mineral density QTL 90	5.2		femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	10	51289203	84596393	Rat
1549846	Scl47	Serum cholesterol level QTL 47	3.6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	53104718	98104718	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	53621375	112626471	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	53621375	112626471	Rat
631530	Tls3	T-lymphoma susceptibility QTL 3	0	0.0001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	10	53625815	98939209	Rat
631535	Cm51	Cardiac mass QTL 51	3		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	10	53637485	94807701	Rat
1359017	Hrtrt21	Heart rate QTL 21	2.4		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	10	55224855	100224855	Rat
2306787	Ean3	Experimental allergic neuritis QTL 3	3.1		nervous system integrity trait (VT:0010566)	body weight loss (CMO:0001399)	10	55678976	69385767	Rat
70171	Cari1	Carrageenan-induced inflammation QTL 1	4.9	0.0005	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	10	55678976	112626471	Rat
70164	Bw21	Body weight QTL 21	4.36	0.00005	body mass (VT:0001259)	body weight (CMO:0000012)	10	55679084	102427604	Rat
1354608	Cm33	Cardiac mass QTL 33	2.8		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	10	56698730	101698730	Rat
1549831	Bss6	Bone structure and strength QTL 6	4		lumbar vertebra strength trait (VT:0010574)	vertebra ultimate force (CMO:0001678)	10	60450007	105450007	Rat
2312662	Slep8	Serum leptin concentration QTL 8		0.05	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	10	60875260	105875260	Rat
2312668	Scl65	Serum cholesterol level QTL 65		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	60875260	105875260	Rat
2312672	Insul15	Insulin level QTL 15		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	10	60875260	105875260	Rat
2293698	Bss43	Bone structure and strength QTL 43	5.33	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	10	62096293	107096293	Rat
1331839	Eae18b	Experimental allergic encephalomyelitis QTL 18b	5.8	0.03	nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	10	64550912	70202084	Rat
70363	Bp71	Blood pressure QTL 71		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	64648175	84601269	Rat
2306970	Anxrr22	Anxiety related response QTL 22	5.95		fear/anxiety-related behavior trait (VT:1000241)	number of periods of voluntary immobility (CMO:0001045)	10	64648175	101691360	Rat
1558643	Cm44	Cardiac mass QTL 44	4.8	0.0000368	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	64648175	102149713	Rat
6893336	Cm75	Cardiac mass QTL 75	0.1	0.87	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	10	64648175	102149713	Rat
631526	Bp76	Blood pressure QTL 76		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	64648311	69123603	Rat
61402	Niddm3	Non-insulin dependent diabetes mellitus QTL 3	4.58		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	64648311	85513822	Rat
61449	Ciaa2	CIA Autoantibody QTL 2	7.1		blood autoantibody amount (VT:0003725)	calculated serum anti-type 2 collagen antibody titer (CMO:0001279)	10	65590122	110590122	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	381
Count of miRNA genes:	222
Interacting mature miRNAs:	281
Transcripts:	ENSRNOT00000012245
Prediction methods:	Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	43	57	41	19	41	8	11	74	35	36	11	8
Low											5
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_182950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AABR07030075	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01064992	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY336949	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC100063	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC128704	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473948	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000012245 ⟹ ENSRNOP00000012245

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	10	65,791,003 - 65,805,693 (-)	Ensembl

RefSeq Acc Id:

NM_182950 ⟹ NP_891995

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	10	65,791,002 - 65,805,693 (-)	NCBI
Rnor_5.0	10	65,837,922 - 65,853,370 (+)	NCBI
RGSC_v3.4	10	64,632,189 - 64,646,879 (-)	RGD
Celera	10	62,394,329 - 62,409,019 (-)	RGD

Sequence:

show sequence

GCCGGGTCTTGTAGTCTGTTTCCCCGATATGCAGGGTTGGGCTGTAACTCCGAAGTCGGCGGGC
GCAGGATGTGAGCTCACAGCCGAGATTGCAGATAGCTAGCTACAGGCCAGAGGCCGCACGGAGT
TCGCTTGCCACTTGGCTGAGAGGAAAGGCGCCCCCGCGGACGCACTGAGAGTATGAGGCCCTGG
CCTCTGCGGGACACTCATTTGTGACCACTTCCACCACGGCAGAGCCTTCCAAGCCTACCTCCTG
CCGTGTGGTAATCTACCTGCAGCGGGAGATGTCAGGGGACACCTGTCTGTGCCCAGCCTCAGGA
GCCAAGCCCAAGATAAGTGGCTTCAAAGGAGGTGGGCTGGGTAACAAGTACGTGCAGCTCAATG
TGGGGGGCTCCCTGCACTACACCACGGTGCGGGCTCTCACCCGGCACGACACAATGCTCAAGGC
CATGTTCAGTGGGCGGATGGAAGTGCTGACCGACAAAGAAGGCTGGATCCTCATAGACCGTTGT
GGAAAGCACTTTGGCACCATCTTGAATTACCTCCGAGATGACACCGTCACCCTCCCTCAAAGCC
GGCAAGAAATCCAGGAATTGATGGCTGAAGCAAAATATTACCTCATTCAAGGGCTGGTGAGCTT
GTGCCAGGCCGCCCTGCAGGACAAGAAAGACTCCTACCAGCCTGTGTGCAACATCCCCATCATC
ACATCCCTGAGGGAGGAGGACAGGCTCATTGAATCCTCCACAAAGCCGGTGGTGAAGCTGCTGT
ACAACAGGAGCAATAACAAGTACTCGTACACCAGCAACTCTGATGATCACCTACTGAAAAACAT
TGAACTGTTTGACAAGCTGTCCCTGCGCTTCAATGGTCGCGTGCTCTTCATCAAGGACGTCATC
GGTGACGAGATCTGCTGCTGGTCTTTCTATGGCCAGGGTCGTAAGCTGGCAGAAGTGTGCTGCA
CCTCCATTGTGTATGCCACAGAGAAGAAGCAGACCAAGGTGGAATTCCCAGAGGCCCGTATCTA
TGAGGAGACACTCAATGTCCTGCTCTATGAGACCCCTCGAGTCCCTGACAATTCCTTGCTGGAG
GCCACAAGCCGCAGCCGCAGCCAGGCTTCCCCCAGTGAAGATGAGGACACCTTTGAATTACGGG
ACCGTGTCCGTCGCATTCACGTCAAGCGCTATAGTACTTACGACGACCGTCAACTCGGCCATCA
GTCTGCTCATCGCGACTAATGAGACCCTTAGGAAATCAGGGCACAGGAAGTCCTGTCTGCCACA
CTGTGGACATACCCATTGGCCACCCCATGCTGCTCCTCTAGCTTGGGAGTCTGCTCTAATATGT
ACAGGTAACAGTCCTGCTTGGGAGGTCAGGAAGCAGGGAGAGGAAAGGCCACATCATCATCTTG
CCTGGCCCTCCCCCAGCACTTCCAGATGCCACCCCACTTCCTGCCAACAGGGAACAACTTATGC
TCTAGGGTGAGTTCCACCTCCTGCCAAGAACACTCCCCGGGCCCTTGGCTGCATGCCCCTTTCT
TCTGAAGGGCTCCTTTATTTCCTCAGCTGAGGCGCACGGGAACAGCTTTGTTCTAGGGGAAAGG
AGGCTTGTGGTGCTGAGGACCCAAATTTGAACAGAAAAGGCAGCCTTTTTTCCCTAAGGTGTTT
AAACATTGCCATGACCTGGATTTTGTTTGTTTTTAAATCTAGATGTTAGCATGGTGGCCATGCC
TATAATCCCAGCTATGAAGAGGCTAAGGCAGGATCACGAGTTCTAGGCTAGCCTGGGCAACACA
GCAAGACCCTCAGTATAAAAGTTTAAAAGAAGGGCTAGTGGCATAGCTCAGTGGTAGAGTACTT
ACCTGGCAAGAGTGAGGCCCTGGATTCAATCCCCGGTATTGCCACACTGAGTAAGAAATGACTA
GTCTGAGGGAAAGGCTAGGACTAAGCATGTTACCTCTGCAGGATGCTAGGACCCCACATAGTAC
GGGCACACATATACATACTTGCTCCACCCTTTTCCATATCGTAGGACCCATCTTTAAAGCACTT
TGTATGTCTATCATTCAGGAAAATCTATTCTGCCTTGACCCAAAGCTTTTTCTGACACTGATCT
CCTCTTGCAGAATCTAAAGGACAGGATAAGACAGGAGGATCACAAGTTTGAGACCAGCCTGTGC
TAGGTAGTTAAAGTTCCTGGTTTAGGGAGACTTTGTCTCAAGAAAAAAAGTAACTAAACTGACC
AGCCTTGGCTTGTCAGCCTGATTGGCCATCCCAAAGAATACTAAGAAGGAAAGGATGTCCAAGT
TGAAAATGGCTTTAACAGCATCCTGTGGGGAAAGATCTTACCCCTACACTGCAGGGTCACATCA
CTGACTCAGATTTAACAAGATACTTTGGTTTGAGCCTCATACTTGGGTATGCTCAGCTCTAAGA
CATGCTGTCCCCACACACCAGCAAGCCAAAAGCTGTGATGCAGGCCAGAAACAAGCTGCAGCAG
AAGGCCATGGAGCCATCGGCTGAAGCAGCAAAGTCCTGGAGCTCCATGCTGTTAGCAGTGGCCA
GGATGTGGTGCAGCCCCTGACACCATGTCTCGGTTTGTTCTGGCTCTGGGTGGTGGTTCTGCCT
AGTGATGACTCTCCAAATCCACAGTAACTAGGACAGCCTAAGCCTTTAAAAGGCCTTCATTTCT
TCTGGGTCACTGATCATGGAGGTACCAAGATCTAGACCTGGTGTAAGTTCTTCCTTTGGTTTCT
TTGTTGGCATTGGCTGTCTTAACTGGATTCTTTCCAGAGGAATGTTGTCACTGGAGGGGGCTGT
TTGTACGCCTAAGGAAGTGTGTGGCCATCAACAGTGCTCAAGGGATGATAGACAGTCAGCTGCA
TCCCTTGACCACTCTTGCGATTGCCACATGGGCACACATAGCTCACCTCTTAGAGCTTATGGGC
AGATGCCAAGCCCAGGCTTGGGTTGTCACATGGATCTGACCTGACATGATAGAGCAGGGGAAAT
GGGAACTGTGACTTAACAATCAGGCGTGTTATGTTAATCACAATCTTGAATGTATAAATAGCTC
TAAGATACTTGGGTCAGTCACCTTAGTGATGAGCAGCTACTAGTTCTTCAGACCTCACTGGAAC
AAAGATGACAGCCCAATTTTTTTGGCCAAGTTTAGGCTTTCGCTTTGAGCCTTTCCCACAGATT
TTGGAATGTTACAGTGTGAGGCTACAATCTGTTTTCTCAGCTGCCCCAAGAAGCCCCTTACTGT
TCAGTTTCCCTGCTGCCTGCTGTCCCTTTACCTTCACACCCTCTTTAGCCTCTGTGGTGCTGAC
ATTCATAACTTCTGCTGCTCAGAGCTGTCCAGTTGTTGGGCTGAGAAAAAGCACAGCAGCAGGA
GTCCCAGGTTGGGCATTCATCTTTTTAACTGAAAATTTCTTCTTGGTTTAAGGAAAACACTAAT
ACTGAAGTGATCTGGACTTTGTGGCTTTGTAGCCTCTGAGGAGAGCAGAGCCAGCAGCTCCCTA
GAAGAAATTTTGCACGGAAAGCAACTAAGGCCGTAAGGGCTTGTGAGATTTCCCCGTCCCCTCC
TAAAGTAGTTCTGGCAGGATGGGATTTTTGATCACAGGCAGCCCAGGGGAAGGGGAAGTAAACA
TAAGGCATGGATGAGGGTCAGACTGGAAGCTGCTAACACACACCGGCTGTGTGCTCTGTTAACC
TGGGACGTGTGACCGGTCAGCCTGAAGGGCAACACAGGTTCTGGCACGAAAGAATGTGTCCTCT
ACTGCATACCTGCAATCTTGGTCGCTTACCCTCAGTGAGAGAAGTAAACACTAACTTGTAATAA
AATTGTTTTACACTGCTGAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_891995	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI00064	(Get FASTA)	NCBI Sequence Viewer
	AAI28705	(Get FASTA)	NCBI Sequence Viewer
	AAP97077	(Get FASTA)	NCBI Sequence Viewer
	EDM05363	(Get FASTA)	NCBI Sequence Viewer
	EDM05364	(Get FASTA)	NCBI Sequence Viewer
	Q7TNY1	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_891995 ⟸ NM_182950

- UniProtKB:

Q7TNY1 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MSGDTCLCPASGAKPKISGFKGGGLGNKYVQLNVGGSLHYTTVRALTRHDTMLKAMFSGRMEVL
TDKEGWILIDRCGKHFGTILNYLRDDTVTLPQSRQEIQELMAEAKYYLIQGLVSLCQAALQDKK
DSYQPVCNIPIITSLREEDRLIESSTKPVVKLLYNRSNNKYSYTSNSDDHLLKNIELFDKLSLR
FNGRVLFIKDVIGDEICCWSFYGQGRKLAEVCCTSIVYATEKKQTKVEFPEARIYEETLNVLLY
ETPRVPDNSLLEATSRSRSQASPSEDEDTFELRDRVRRIHVKRYSTYDDRQLGHQSAHRD

hide sequence

RefSeq Acc Id:

ENSRNOP00000012245 ⟸ ENSRNOT00000012245

Protein Domains

BTB GAGE

Transcriptome

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

Promoters

RGD ID:

13697485

Promoter ID:

EPDNEW_R8010

Type:

initiation region

Name:

Tnfaip1_1

Description:

TNF alpha induced protein 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	10	65,805,602 - 65,805,662	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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CSV

TAB

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

ACI/EurMcwi (RGD)

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CSV

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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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CSV

TAB

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

BN/SsN (MCW)

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CSV

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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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CSV

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

F344/NCrl (RGD)

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CSV

TAB

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

F344/NRrrc (MCW)

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CSV

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

FHH/EurMcwi (MCW)

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CSV

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

FHH/EurMcwi (RGD)

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CSV

TAB

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

FHL/EurMcwi (MCW)

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CSV

TAB

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

FHL/EurMcwi (RGD)

Visual

CSV

TAB

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

GH/OmrMcwi (MCW)

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CSV

TAB

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

GK/Ox (RGD)

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CSV

TAB

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

LE/Stm (RGD)

Visual

CSV

TAB

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

LEW/Crl (RGD)

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

LEW/NCrlBR (RGD)

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

LH/MavRrrc (RGD)

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

LL/MavRrrc (RGD)

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

LN/MavRrrc (RGD)

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

M520/N (MCW)

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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (MCW)

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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/NHsd (RGD)

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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WKY/Gcrc (RGD)

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

WKY/N (MCW)

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

WKY/NCrl (RGD)

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

WKY/NHsd (RGD)

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

WN/N (MCW)

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

Damaging Variants

Assembly: RGSC_v3.4

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
10	64634920	64634921	C	A	snv	LCR/1Mco (UMich)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:3877	AgrOrtholog
Ensembl Genes	ENSRNOG00000009069	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000012245	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000012245	ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7104544	IMAGE-MGC_LOAD
	IMAGE:7459404	IMAGE-MGC_LOAD
InterPro	BTB/POZ_dom	UniProtKB/Swiss-Prot
	GAGE	UniProtKB/TrEMBL
	GAGE_fam	UniProtKB/TrEMBL
	SKP1/BTB/POZ_sf	UniProtKB/Swiss-Prot
	T1-type_BTB	UniProtKB/Swiss-Prot
KEGG Report	rno:287543	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:112583	IMAGE-MGC_LOAD
	MGC:156501	IMAGE-MGC_LOAD
NCBI Gene	287543	ENTREZGENE
PANTHER	PTHR14047	UniProtKB/TrEMBL
Pfam	BTB_2	UniProtKB/Swiss-Prot
	GAGE	UniProtKB/TrEMBL
PhenoGen	Tnfaip1	PhenoGen
SMART	BTB	UniProtKB/Swiss-Prot
	GAGE	UniProtKB/TrEMBL
Superfamily-SCOP	SSF54695	UniProtKB/Swiss-Prot
UniGene	Rn.18199	ENTREZGENE
UniProt	BACD2_RAT	UniProtKB/Swiss-Prot
	Q498V0_RAT	UniProtKB/TrEMBL
	Q7TNY1	ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-12-02	Tnfaip1	TNF alpha induced protein 1	Tnfaip1	tumor necrosis factor, alpha induced protein 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2015-11-25	Tnfaip1	tumor necrosis factor, alpha induced protein 1	Tnfaip1	tumor necrosis factor, alpha-induced protein 1 (endothelial)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-09-10	Tnfaip1	tumor necrosis factor, alpha-induced protein 1 (endothelial)		tumor necrosis factor, alpha-induced protein 1	Name updated	1299863	APPROVED
2002-06-10	Tnfaip1	Tumor necrosis factor, alpha-induced protein 1 (endothelial)			Symbol and Name status set to approved	70586	APPROVED

RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.

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)

Imported Annotations - CTD