Trim11 (tripartite motif-containing 11)

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| FTP Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References FTP Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Trim11 (tripartite motif-containing 11) Rattus norvegicus

Analyze

Symbol:

Trim11

Name:

tripartite motif-containing 11

RGD ID:

1305448

Description:

Predicted to have protein domain specific binding activity; transcription factor binding activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including negative regulation of viral process; positive regulation of viral entry into host cell; and protein ubiquitination. Predicted to localize to cytosol and nucleoplasm. Orthologous to human TRIM11 (tripartite motif containing 11); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

E3 ubiquitin-protein ligase TRIM11; LOC360534; RING-type E3 ubiquitin transferase TRIM11; tripartite motif protein 11; tripartite motif-containing protein 11

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	TRIM11 (tripartite motif containing 11)	HGNC	Ensembl, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther
Mus musculus (house mouse):	Trim11 (tripartite motif-containing 11)	HGNC	OrthoMCL, NCBI, OMA, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Trim11 (tripartite motif containing 11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TRIM11 (tripartite motif containing 11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TRIM11 (tripartite motif containing 11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Trim11 (tripartite motif containing 11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TRIM11 (tripartite motif containing 11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	TRIM11 (tripartite motif containing 11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Trim11 (tripartite motif containing 11)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	TRIM11 (tripartite motif containing 11)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Mus musculus (house mouse):	Trim65 (tripartite motif-containing 65)	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Danio rerio (zebrafish):	zgc:173581	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoInspector)
Danio rerio (zebrafish):	btr20 (bloodthirsty-related gene family, member 20)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoInspector)
Caenorhabditis elegans (roundworm):	B0281.8	Alliance	DIOPT (Ensembl Compara\|InParanoid)
Caenorhabditis elegans (roundworm):	ZK1240.5	Alliance	DIOPT (Ensembl Compara\|InParanoid)
Caenorhabditis elegans (roundworm):	ZK1240.9	Alliance	DIOPT (Ensembl Compara\|InParanoid)
Caenorhabditis elegans (roundworm):	ZK1240.8	Alliance	DIOPT (Ensembl Compara\|InParanoid)
Caenorhabditis elegans (roundworm):	ZK1240.3	Alliance	DIOPT (Ensembl Compara\|InParanoid)

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	45,322,199 - 45,335,030 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	45,322,248 - 45,335,030 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	45,078,796 - 45,091,446 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	45,270,583 - 45,283,954 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	45,284,255 - 45,294,925 (+)	NCBI
Celera	10	43,024,655 - 43,037,489 (+)	NCBI		Celera
Cytogenetic Map	10	q22	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-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

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

2,4-dinitrotoluene (EXP)

2-butoxyethanol (ISO)

3,4-methylenedioxymethamphetamine (ISO)

4,4'-diaminodiphenylmethane (ISO)

acrolein (ISO)

aflatoxin B1 (ISO)

aflatoxin B2 (ISO)

alpha-pinene (ISO)

benzene (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

bisphenol A (EXP)

C60 fullerene (EXP)

carbon nanotube (ISO)

choline (ISO)

clofibrate (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

ethanol (ISO)

folic acid (ISO)

L-methionine (ISO)

lead(0) (ISO)

lead(2+) (ISO)

methylmercury chloride (ISO)

N-ethyl-N-nitrosourea (ISO)

ozone (ISO)

pirinixic acid (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

quercetin (ISO)

sunitinib (ISO)

tamoxifen (ISO)

tetraphene (ISO)

titanium dioxide (ISO)

tunicamycin (ISO)

urethane (ISO)

valproic acid (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

defense response to virus (IEA)

innate immune response (IBA,ISO)

negative regulation of neurogenesis (ISO)

negative regulation of transcription, DNA-templated (ISO)

negative regulation of viral entry into host cell (ISO)

negative regulation of viral release from host cell (ISO)

negative regulation of viral transcription (ISO)

positive regulation of viral entry into host cell (ISO)

protein ubiquitination (IBA,IEA)

regulation of gene expression (IBA)

Cellular Component

cellular_component (ND)

cytoplasm (IBA,ISO)

cytosol (IEA,ISO)

nucleoplasm (IEA,ISO)

nucleus (ISO)

Molecular Function

molecular_function (ND)

protein binding (ISO)

protein domain specific binding (ISO)

transcription factor binding (ISO)

ubiquitin protein ligase activity (IBA,ISO)

ubiquitin-protein transferase activity (ISO)

zinc ion binding (IEA)

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.	GOA data from the GO Consortium
3.	MGD data from the GO Consortium
4.	RGD automated data pipeline
5.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	RGD automated import pipeline for gene-chemical interactions
7.	RGD comprehensive gene curation

Additional References at PubMed

PMID:11331580	PMID:12477932	PMID:16098226	PMID:18248090	PMID:18574153	PMID:18628401

Genomics

Comparative Map Data

Trim11
(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	45,322,199 - 45,335,030 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	45,322,248 - 45,335,030 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	45,078,796 - 45,091,446 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	45,270,583 - 45,283,954 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	45,284,255 - 45,294,925 (+)	NCBI
Celera	10	43,024,655 - 43,037,489 (+)	NCBI		Celera
Cytogenetic Map	10	q22	NCBI

TRIM11
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	1	228,393,673 - 228,406,835 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	1	228,393,672 - 228,406,835 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	1	228,581,373 - 228,594,584 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	226,648,000 - 226,661,140 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	1	224,888,113 - 224,901,252	NCBI
Celera	1	201,771,344 - 201,784,479 (-)	NCBI
Cytogenetic Map	1	q42.13	NCBI
HuRef	1	199,095,985 - 199,109,126 (-)	NCBI		HuRef
CHM1_1	1	229,853,700 - 229,866,840 (-)	NCBI		CHM1_1

Trim11
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	58,865,054 - 58,882,288 (+)	NCBI	GRCm39		mm39
GRCm38	11	58,973,726 - 58,991,462 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	58,978,093 - 58,991,458 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	58,791,618 - 58,804,960 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	58,794,311 - 58,807,653 (+)	NCBI			mm8
Celera	11	63,744,428 - 63,757,877 (+)	NCBI		Celera
Cytogenetic Map	11	B1.3	NCBI

Trim11
(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_004955581	114,750 - 125,143 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955581	114,750 - 123,410 (+)	NCBI	ChiLan1.0	ChiLan1.0

TRIM11
(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	1	209,006,979 - 209,019,994 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	209,006,979 - 209,019,994 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	203,795,924 - 203,809,703 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

TRIM11
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	14	640,375 - 647,427 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Trim11
(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_004937135	11,350 - 21,235 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TRIM11
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	51,733,180 - 51,743,256 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	51,729,333 - 51,743,256 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

TRIM11
(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	25	1,322,817 - 1,336,535 (+)	NCBI
ChlSab1.1 Ensembl	25	1,323,528 - 1,335,504 (+)	Ensembl

Trim11
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624937	1,100,297 - 1,109,017 (-)	NCBI

Position Markers

RH137147

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	10	45,334,768 - 45,334,948	NCBI	Rnor6.0
Rnor_5.0	10	45,091,182 - 45,091,362	UniSTS	Rnor5.0
RGSC_v3.4	10	45,283,692 - 45,283,872	UniSTS	RGSC3.4
Celera	10	43,037,227 - 43,037,407	UniSTS
Cytogenetic Map	10	q22	UniSTS
RH 3.4 Map	10	493.4	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
2298544	Neuinf9	Neuroinflammation QTL 9	4.6		nervous system integrity trait (VT:0010566)	spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)	10	5877536	64401490	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
1578761	Stresp21	Stress response QTL 21	3.3		thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	10	7521450	52521450	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
9590310	Scort19	Serum corticosterone level QTL 19	6.3	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	12639513	57639513	Rat
9590268	Scort13	Serum corticosterone level QTL 13	3.26	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	12639513	57639513	Rat
9589136	Insul27	Insulin level QTL 27	10.46	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	10	12639513	57639513	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
1354587	Kidm21	Kidney mass QTL 21	3.3		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	10	15375474	62469074	Rat
631564	Apr3	Acute phase response QTL 3	3.9		blood interleukin-6 amount (VT:0008595)	plasma interleukin-6 level (CMO:0001927)	10	16468736	61468736	Rat
6893350	Bw99	Body weight QTL 99	0.87	0.16	body mass (VT:0001259)	body weight (CMO:0000012)	1	17121542	62121542	Rat
6893352	Bw100	Body weight QTL 100	0.33	0.6	body mass (VT:0001259)	body weight (CMO:0000012)	1	17121542	62121542	Rat
631532	Cm50	Cardiac mass QTL 50	6.6		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	10	18246394	53637634	Rat
1598852	Anxrr19	Anxiety related response QTL 19	5.07		body movement coordination trait (VT:0005424)	number of rearing movements in an experimental apparatus (CMO:0001752)	10	19402814	64402814	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
1581497	Esta1	Estrogen-induced thymic atrophy QTL 1			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	10	21707766	64648311	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
634329	Pia15	Pristane induced arthritis QTL 15	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	24884084	47487910	Rat
70224	Eae3	Experimental allergic encephalomyelitis QTL 3	4.1		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	10	27237530	64648311	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
1600371	Mcs21	Mammary carcinoma susceptibility QTL 21	3		mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	10	30021354	54057745	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
61332	Eau3	Experimental allergic uveoretinitis QTL 3		0.004	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	10	35669465	46851407	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
1354614	Hpcl1	Hepatic cholesterol level QTL 1	3.3		liver cholesterol amount (VT:0010498)	liver cholesterol level (CMO:0001597)	10	36584373	53645194	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
11528628	Bss116	Bone structure and strength QTL 116	6.46	0.00000038	femur morphology trait (VT:0000559)	femur length (CMO:0000442)	10	45114283	45744081	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	135
Count of miRNA genes:	97
Interacting mature miRNAs:	120
Transcripts:	ENSRNOT00000047268
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	24	32	22	19	22			66	35	41	11
Low		19	25	19		19	8	11	8				8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001108276	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006246505	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AAHX01064185	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC099089	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC160894	(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:

ENSRNOT00000047268 ⟹ ENSRNOP00000039974

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	10	45,322,248 - 45,335,030 (+)	Ensembl

RefSeq Acc Id:

NM_001108276 ⟹ NP_001101746

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	10	45,322,199 - 45,335,030 (+)	NCBI
Rnor_5.0	10	45,078,796 - 45,091,446 (+)	NCBI
RGSC_v3.4	10	45,270,583 - 45,283,954 (+)	RGD
Celera	10	43,024,655 - 43,037,489 (+)	RGD

Sequence:

show sequence

GGAAGTACCCACTACCCAGGAGGCTAAGAGTGCCGCTATCTGCTCCGGGCCCGCTCCTCCTGCG
CTCTCTCTGCGGAATAGCTTGATTGCCCCCCGGCACCACGAAGAGCCTGATCCAGGCGCAGCCG
CTAGCACCATGGCCGCTCCAGACTTGTCCACCAACCTCCAAGAGGAGGCCACCTGCGCCATCTG
CCTTGATTACTTCACCGACCCAGTGATGACTGACTGCGGCCACAACTTCTGCCGGGAGTGCATC
CGACGTTGCTGGGGCCAGCCGGAGGGCCCGTACGCGTGCCCCGAGTGCCGCGAGGTGTCGGCGC
AGAGGAACCTACGGCCCAACCGCCCGCTCGCCAAAATGGCAGAAATGGCACGGCGCTTGCACCC
GCCTTCGCCCGTCCCCCAGGGCGTCTGCGCGGCGCACCGGGAGCCGCTAACCACCTTCTGCGGC
GACGACCTCAGCCTGCTGTGCCCCACCTGCGAGCGCTCGGAGCACTGGGCTCACCGGGTGCGAC
CGCTGCAGGAGGCGGCGGACGACCTCAAGGGGAGGCTGGAGAAGTCACTGGAGCACCTGCGGAA
ACAAATGGAGGATGCGATGCTGTTCCAAGCCCAGGCTGAGGAAACCTGTGCCTTGTGGCAGGCA
GATGGTGGAGAGCCAGCGGCAGAATGTGCTGGGCGAGTTTGAGAGGCTGCGCCGCCTACTGGCA
GAGGAGGAGCAGCAGCTGCTGCAGAAGCTGGAGGAGGAGGAGCTGGAGGTTCTGCCCCGCCTGC
GGGAAGGAGCTGCACGGCTAGGCCAGCAAAGCACGCAGCTCGCGGCCCTCGTCTCAGAGCTTGA
GAGCCGCTGCCAGCTGCCAGCACTGGGTTTATTGCAGGACATTAAGGACGCCCTGTGCAGGGTG
CAGGATGTGAAGCTGCAGCCTCCAGCAGTGGTGCCCATGGAGCTGAGGACTGTGTGCCGGGTCC
CAGGGCTGGTGGAGACCCTGCGGAGGTTCCGAGGTGACATAACCTTGGACCCAGACACCGCCAA
CCCGGAGCTGGTCTTATCTGAGGACCGGAGGAGTGTGCAGCGTGGTGAACAGCGGCAGGCCCTG
CCTGACAGCCCAGAGCGGTTCGACCCAGGCCCCTGTGTGCTGGGCCAGGAGCGCATTACCTCTG
GCCGCCACTACTGGGAGGTAGAAGTTGGGGACCAAACCAGCTGGGCACTTGGCGTGTGCAAAGA
AACTGTCAACAGGAAGGAAAAGGGGGAGCTGTCCGCTGGCAATGGGTTCTGGATCCTGGTGTTC
CTGGGGAGCTTCTATAACTCCAATGAGCGGGCCTTCTCCCCACTACGGGACCCTCCCAAGCGTG
TGGGGATTTTTCTGGACTATGAAGCTGGTCATCTCTCATTCTACAGTGCCACAGATGGGTCGCT
GTTGTTTATCTTCCCTGAGACCCCCTTCTCAGGTACACTGCGGCCTCTCTTCTCACCTCTGTCC
AGCAGCCCAACCCCTATGACCATCTGCAGACTGATAGGTGTTTCTGGGGACACCCTTGGTCCCC
AGTGACCCAAACCTTCTAGGAGAGTCCCTTCACCTCTCCTGGTCCTTTGTCCTGGCCATGCAGA
GACCCAGGAGCCAGCTGGCACCCTGTGAAGATTAGGAGGAGCACACAGTGCCTTTCTGACCACA
TGTGGGAAACCACAAGTTCTCAGTCTCAGGCAGTCTGATTGAGAGTATATTGGGCTGGGCTCTG
CCCTCATGCTGGGGATCATTCCCACCCCTGATGCCTCTTAGTGCCCAAAGCTCTCACCAAAGCA
CTAAGTCCCATGTGTCACCAGCACCTCAGATTCTAGGTTCCTGTAATGCCATAGACTTTTCCAG
AAGTAGTCAAGGCTTGTCCATGCTGCTGTGAGCAGTCTGGTCTGCCTGCCAAGCACACCACACA
GTCCCTGAAGTGATACTGGGTAAGGTTAGGTAGAGCCAGCTTCAAGCTCACCAGCATCTCAGGA
CTTGGTCTAATACATGGAAGACTGCTCAGAGCTGCTGGGTGTGGCTACAAAGAGAAATTAGAAG
ATAACAGCCTGATCCCAGAGATGAGACAGTCTGGTGGGGGCTAATCCTAAAGGAGTATTCAACG
TTTGTATTCAGCACATAAGGGGCCCAGAAGTAGAACTCAGAAGTGACACTTGAACACACCCTTC
TATTCTGAGACTTGTCTGGTTTTGCCCTCAAAAGGGCTCCCCTGGTGGCTGTGGTACACTGCCC
CTGCTTTGCAGACTGAGCTGCACAGTCCGGAGTGCACAGGAGCCAGTAGTGACTGCTTTTGTAT
ACACTTCCGGGAGTTTTATAGTCTATTTATTGAAAGGGAAACATTTAAATAAACTCATCTGAAA
TAGTG

hide sequence

RefSeq Acc Id:

XM_006246505 ⟹ XP_006246567

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	10	45,322,200 - 45,335,030 (+)	NCBI
Rnor_5.0	10	45,078,796 - 45,091,446 (+)	NCBI

Sequence:

show sequence

GAAGTACCCACTACCCAGGAGGCTAAGAGTGCCGCTATCTGCTCCGGGCCCGCTCCTCCTGCGC
TCTCTCTGCGGAATAGCTTGATTGCCCCCCGGCACCACGAAGAGCCTGATCCAGGCGCAGCCGC
TAGCACCATGGCCGCTCCAGACTTGTCCACCAACCTCCAAGAGGAGGCCACCTGCGCCATCTGC
CTTGATTACTTCACCGACCCAGTGATGACTGACTGCGGCCACAACTTCTGCCGGGAGTGCATCC
GACGTTGCTGGGGCCAGCCGGAGGGCCCGTACGCGTGCCCCGAGTGCCGCGAGGTGTCGGCGCA
GAGGAACCTACGGCCCAACCGCCCGCTCGCCAAAATGGCAGAAATGGCACGGCGCTTGCACCCG
CCTTCGCCCGTCCCCCAGGGCGTCTGCGCGGCGCACCGGGAGCCGCTAACCACCTTCTGCGGCG
ACGACCTCAGCCTGCTGTGCCCCACCTGCGAGCGCTCGGAGCACTGGGCTCACCGGGTGCGACC
GCTGCAGGAGGCGGCGGACGACCTCAAGGGGAGGCTGGAGAAGTCACTGGAGCACCTGCGGAAA
CAAATGGAGGATGCGATGCTGTTCCAAGCCCAGGCTGAGGAAACCTGTGCCTTGTGGCAGAAGA
TGGTGGAGAGCCAGCGGCAGAATGTGCTGGGCGAGTTTGAGAGGCTGCGCCGCCTACTGGCAGA
GGAGGAGCAGCAGCTGCTGCAGAAGCTGGAGGAGGAGGAGCTGGAGGTTCTGCCCCGCCTGCGG
GAAGGAGCTGCACGGCTAGGCCAGCAAAGCACGCAGCTCGCGGCCCTCGTCTCAGAGCTTGAGA
GCCGCTGCCAGCTGCCAGCACTGGGTTTATTGCAGGACATTAAGGACGCCCTGTGCAGGGTGCA
GGATGTGAAGCTGCAGCCTCCAGCAGTGGTGCCCATGGAGCTGAGGACTGTGTGCCGGGTCCCA
GGGCTGGTGGAGACCCTGCGGAGGTTCCGAGGTGACATAACCTTGGACCCAGACACCGCCAACC
CGGAGCTGGTCTTATCTGAGGACCGGAGGAGTGTGCAGCGTGGTGAACAGCGGCAGGCCCTGCC
TGACAGCCCAGAGCGGTTCGACCCAGGCCCCTGTGTGCTGGGCCAGGAGCGCATTACCTCTGGC
CGCCACTACTGGGAGGTAGAAGTTGGGGACCAAACCAGCTGGGCACTTGGCGTGTGCAAAGAAA
CTGTCAACAGGAAGGAAAAGGGGGAGCTGTCCGCTGGCAATGGGTTCTGGATCCTGGTGTTCCT
GGGGAGCTTCTATAACTCCAATGAGCGGGCCTTCTCCCCACTACGGGACCCTCCCAAGCGTGTG
GGGATTTTTCTGGACTATGAAGCTGGTCATCTCTCATTCTACAGTGCCACAGATGGGTCGCTGT
TGTTTATCTTCCCTGAGACCCCCTTCTCAGGTACACTGCGGCCTCTCTTCTCACCTCTGTCCAG
CAGCCCAACCCCTATGACCATCTGCAGACTGATAGGTGTTTCTGGGGACACCCTTGGTCCCCAG
TGACCCAAACCTTCTAGGAGAGTCCCTTCACCTCTCCTGGTCCTTTGTCCTGGCCATGCAGAGA
CCCAGGAGCCAGCTGGCACCCTGTGAAGATTAGGAGGAGCACACAGTGCCTTTCTGACCACATG
TGGGAAACCACAAGTTCTCAGTCTCAGGCAGTCTGATTGAGAGTATATTGGGCTGGGCTCTGCC
CTCATGCTGGGGATCATTCCCACCCCTGATGCCTCTTAGTGCCCAAAGCTCTCACCAAAGCACT
AAGTCCCATGTGTCACCAGCACCTCAGATTCTAGGTTCCTGTAATGCCATAGACTTTTCCAGAA
GTAGTCAAGGCTTGTCCATGCTGCTGTGAGCAGTCTGGTCTGCCTGCCAAGCACACCACACAGT
CCCTGAAGTGATACTGGGTAAGGTTAGGTAGAGCCAGCTTCAAGCTCACCAGCATCTCAGGACT
TGGTCTAATACATGGAAGACTGCTCAGAGCTGCTGGGTGTGGCTACAAAGAGAAATTAGAAGAT
AACAGCCTGATCCCAGAGATGAGACAGTCTGGTGGGGGCTAATCCTAAAGGAGTATTCAACGTT
TGTATTCAGCACATAAGGGGCCCAGAAGTAGAACTCAGAAGTGACACTTGAACACACCCTTCTA
TTCTGAGACTTGTCTGGTTTTGCCCTCAAAAGGGCTCCCCTGGTGGCTGTGGTACACTGCCCCT
GCTTTGCAGACTGAGCTGCACAGTCCGGAGTGCACAGGAGCCAGTAGTGACTGCTTTTGTATAC
ACTTCCGGGAGTTTTATAGTCTATTTATTGAAAGGGAAACATTTAAATAAACTCATCTGAAATA
GTG

hide sequence

Protein Sequences


Protein RefSeqs	NP_001101746	(Get FASTA)	NCBI Sequence Viewer
	XP_006246567	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI60894	(Get FASTA)	NCBI Sequence Viewer
	B1H278	(Get FASTA)	NCBI Sequence Viewer
	EDM04574	(Get FASTA)	NCBI Sequence Viewer
	EDM04575	(Get FASTA)	NCBI Sequence Viewer
	EDM04576	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001101746 ⟸ NM_001108276

- Sequence:

show sequence

MRCCSKPRLRKPVPCGRQMVESQRQNVLGEFERLRRLLAEEEQQLLQKLEEEELEVLPRLREGA
ARLGQQSTQLAALVSELESRCQLPALGLLQDIKDALCRVQDVKLQPPAVVPMELRTVCRVPGLV
ETLRRFRGDITLDPDTANPELVLSEDRRSVQRGEQRQALPDSPERFDPGPCVLGQERITSGRHY
WEVEVGDQTSWALGVCKETVNRKEKGELSAGNGFWILVFLGSFYNSNERAFSPLRDPPKRVGIF
LDYEAGHLSFYSATDGSLLFIFPETPFSGTLRPLFSPLSSSPTPMTICRLIGVSGDTLGPQ

hide sequence

RefSeq Acc Id:	XP_006246567 ⟸ XM_006246505
- Peptide Label:	isoform X1
- UniProtKB:	B1H278 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MAAPDLSTNLQEEATCAICLDYFTDPVMTDCGHNFCRECIRRCWGQPEGPYACPECREVSAQRN LRPNRPLAKMAEMARRLHPPSPVPQGVCAAHREPLTTFCGDDLSLLCPTCERSEHWAHRVRPLQ EAADDLKGRLEKSLEHLRKQMEDAMLFQAQAEETCALWQKMVESQRQNVLGEFERLRRLLAEEE QQLLQKLEEEELEVLPRLREGAARLGQQSTQLAALVSELESRCQLPALGLLQDIKDALCRVQDV KLQPPAVVPMELRTVCRVPGLVETLRRFRGDITLDPDTANPELVLSEDRRSVQRGEQRQALPDS PERFDPGPCVLGQERITSGRHYWEVEVGDQTSWALGVCKETVNRKEKGELSAGNGFWILVFLGS FYNSNERAFSPLRDPPKRVGIFLDYEAGHLSFYSATDGSLLFIFPETPFSGTLRPLFSPLSSSP TPMTICRLIGVSGDTLGPQ hide sequence

RefSeq Acc Id:

ENSRNOP00000039974 ⟸ ENSRNOT00000047268

Protein Domains

B30.2/SPRY

Transcriptome

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

Promoters

RGD ID:

13697229

Promoter ID:

EPDNEW_R7753

Type:

multiple initiation site

Name:

Trim11_1

Description:

tripartite motif-containing 11

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	45,322,209 - 45,322,269	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
10	45082901	45082902	C	T	snv	M520/N (KNAW)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
10	45326487	45326488	C	T	snv	M520/N (MCW)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1305448	AgrOrtholog
Ensembl Genes	ENSRNOG00000002915	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000039974	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000047268	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	2.60.120.920	UniProtKB/Swiss-Prot
	3.30.40.10	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7446534	IMAGE-MGC_LOAD
InterPro	B30.2/SPRY	UniProtKB/Swiss-Prot
	B30.2/SPRY_sf	UniProtKB/Swiss-Prot
	Butyrophylin_SPRY	UniProtKB/Swiss-Prot
	ConA-like_dom_sf	UniProtKB/Swiss-Prot
	PRY	UniProtKB/Swiss-Prot
	SPRY_dom	UniProtKB/Swiss-Prot
	Znf_B-box	UniProtKB/Swiss-Prot
	Znf_RING	UniProtKB/Swiss-Prot
	Znf_RING/FYVE/PHD	UniProtKB/Swiss-Prot
	Znf_RING_CS	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:188334	IMAGE-MGC_LOAD
NCBI Gene	360534	ENTREZGENE
Pfam	PRY	UniProtKB/Swiss-Prot
	SPRY	UniProtKB/Swiss-Prot
	zf-B_box	UniProtKB/Swiss-Prot
PhenoGen	Trim11	PhenoGen
PRINTS	BUTYPHLNCDUF	UniProtKB/Swiss-Prot
PROSITE	B302_SPRY	UniProtKB/Swiss-Prot
	ZF_BBOX	UniProtKB/Swiss-Prot
	ZF_RING_1	UniProtKB/Swiss-Prot
	ZF_RING_2	UniProtKB/Swiss-Prot
SMART	BBOX	UniProtKB/Swiss-Prot
	PRY	UniProtKB/Swiss-Prot
	RING	UniProtKB/Swiss-Prot
	SPRY	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF49899	UniProtKB/Swiss-Prot
UniGene	Rn.9308	ENTREZGENE
UniProt	B1H278	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-31	Trim11	tripartite motif-containing 11	Trim11_predicted	tripartite motif protein 11 (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-01-12	Trim11_predicted	tripartite motif protein 11 (predicted)			Symbol and Name status set to approved	70820	APPROVED

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

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

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

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