Spop (speckle type BTB/POZ protein)

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Gene: Spop (speckle type BTB/POZ protein) Rattus norvegicus

Analyze

Symbol:

Spop

Name:

speckle type BTB/POZ protein

RGD ID:

1311613

Description:

Predicted to enable RNA polymerase II-specific DNA-binding transcription factor binding activity and ubiquitin protein ligase binding activity. Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process; protein polyubiquitination; and regulation of proteolysis. Predicted to act upstream of or within several processes, including glucose homeostasis; positive regulation of apoptotic process; and regulation of DNA-templated transcription. Predicted to be located in nuclear speck. Predicted to be part of Cul3-RING ubiquitin ligase complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human SPOP (speckle type BTB/POZ protein); PARTICIPATES IN Hedgehog signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; flutamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC287643; speckle-type POZ protein

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):	SPOP (speckle type BTB/POZ protein)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Spop (speckle-type BTB/POZ protein)	HGNC	EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Spop (speckle type BTB/POZ protein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SPOP (speckle type BTB/POZ protein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SPOP (speckle type BTB/POZ protein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	LOC101966403 (speckle type BTB/POZ protein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SPOP (speckle type BTB/POZ protein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LOC103243644 (speckle type BTB/POZ protein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Spop (speckle type BTB/POZ protein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SPOP (speckle type BTB/POZ protein)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Spop (speckle-type BTB/POZ protein)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	spop (speckle-type POZ protein)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	bath-43	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	rdx	Alliance	DIOPT (OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	10	80,358,121 - 80,438,983 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	10	80,358,124 - 80,483,955 (+)	Ensembl
Rnor_6.0	10	83,231,187 - 83,311,987 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	83,231,238 - 83,311,592 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	83,040,592 - 83,121,901 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	84,099,990 - 84,185,130 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	84,102,831 - 84,199,894 (+)	NCBI
Celera	10	79,129,126 - 79,210,141 (+)	NCBI		Celera
Cytogenetic Map	10	q26	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

colorectal cancer (ISO)

Ductal Carcinoma (ISO)

Endometrial Neoplasms (ISO)

genetic disease (ISO)

hepatoblastoma (ISO)

hepatocellular carcinoma (ISO)

lung adenocarcinoma (ISO)

lung non-small cell carcinoma (ISO)

Nabais Sa-de Vries Syndrome, Type 1 (ISO)

Nabais Sa-de Vries Syndrome, Type 2 (ISO)

prostate adenocarcinoma (ISO)

prostate cancer (ISO)

Prostatic Neoplasms (ISO)

stomach cancer (ISO)

uterine cancer (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

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

2-methylcholine (ISO)

acrolein (ISO)

alpha-pinene (ISO)

antirheumatic drug (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

carbon nanotube (ISO)

cobalt dichloride (ISO)

cyclosporin A (ISO)

dibutyl phthalate (ISO)

dioxygen (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

ethanol (ISO)

fenofibrate (ISO)

fenthion (ISO)

flutamide (EXP)

folic acid (ISO)

glyphosate (ISO)

ochratoxin A (EXP)

ozone (ISO)

PCB138 (ISO)

resveratrol (ISO)

SB 431542 (ISO)

tetraphene (ISO)

titanium dioxide (ISO)

trichostatin A (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

glucose homeostasis (ISO)

intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (ISO)

localization (ISO)

negative regulation of DNA-binding transcription factor activity (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway (ISO)

positive regulation of type B pancreatic cell apoptotic process (ISO)

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

protein polyubiquitination (ISO)

regulation of proteolysis (IBA)

type B pancreatic cell apoptotic process (ISO)

ubiquitin-dependent protein catabolic process (ISO)

Cellular Component

Cul3-RING ubiquitin ligase complex (ISO)

cytoplasm (IBA)

nuclear speck (ISO)

nucleus (IBA,ISO)

Molecular Function

molecular function inhibitor activity (ISO)

protein binding (ISO)

RNA polymerase II-specific DNA-binding transcription factor binding (ISO)

ubiquitin protein ligase binding (IBA,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

Hedgehog signaling pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	APPBP2 enhances non-small cell lung cancer proliferation and invasiveness through regulating PPM1D and SPOP.	Gong H, etal., EBioMedicine. 2019 Jun;44:138-149. doi: 10.1016/j.ebiom.2019.05.028. Epub 2019 May 16.
4.	S119N Mutation of the E3 Ubiquitin Ligase SPOP Suppresses SLC7A1 Degradation to Regulate Hepatoblastoma Progression.	He W, etal., Mol Ther Oncolytics. 2020 Oct 4;19:149-162. doi: 10.1016/j.omto.2020.09.008. eCollection 2020 Dec 16.
5.	Speckle-type POZ protein is negatively associated with malignancies and inhibits cell proliferation and migration in liver cancer.	Huang Y, etal., Tumour Biol. 2015 Dec;36(12):9753-61. doi: 10.1007/s13277-015-3753-z. Epub 2015 Jul 10.
6.	Exome sequencing of hepatoblastoma reveals novel mutations and cancer genes in the Wnt pathway and ubiquitin ligase complex.	Jia D, etal., Hepatology. 2014 Nov;60(5):1686-96. doi: 10.1002/hep.27243. Epub 2014 Sep 19.
7.	Decreased expression of speckle-type POZ protein for the prediction of poor prognosis in patients with non-small cell lung cancer.	Li JJ, etal., Oncol Lett. 2017 Sep;14(3):2743-2748. doi: 10.3892/ol.2017.6567. Epub 2017 Jul 10.
8.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
9.	PID Annotation Import Pipeline	Pipeline to import Pathway Interaction Database annotations from NCI into RGD
10.	GOA pipeline	RGD automated data pipeline
11.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
13.	Properties and Clinical Relevance of Speckle-Type POZ Protein in Human Colorectal Cancer.	Xu J, etal., J Gastrointest Surg. 2015 Aug;19(8):1484-96. doi: 10.1007/s11605-015-2767-6. Epub 2015 May 29.
14.	Speckle-type POZ protein functions as a tumor suppressor in non-small cell lung cancer due to DNA methylation.	Yao S, etal., Cancer Cell Int. 2018 Dec 22;18:213. doi: 10.1186/s12935-018-0711-z. eCollection 2018.
15.	SPOP suppresses tumorigenesis by regulating Hedgehog/Gli2 signaling pathway in gastric cancer.	Zeng C, etal., J Exp Clin Cancer Res. 2014 Sep 11;33:75. doi: 10.1186/s13046-014-0075-8.
16.	Silencing speckle-type POZ protein by promoter hypermethylation decreases cell apoptosis through upregulating Hedgehog signaling pathway in colorectal cancer.	Zhi X, etal., Cell Death Dis. 2016 Dec 29;7(12):e2569. doi: 10.1038/cddis.2016.435.

Additional References at PubMed

PMID:11279055	PMID:12477932	PMID:14528312	PMID:15121856	PMID:19684112	PMID:20679732	PMID:20811152	PMID:22085717

Genomics

Comparative Map Data

Spop
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	10	80,358,121 - 80,438,983 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	10	80,358,124 - 80,483,955 (+)	Ensembl
Rnor_6.0	10	83,231,187 - 83,311,987 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	83,231,238 - 83,311,592 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	83,040,592 - 83,121,901 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	84,099,990 - 84,185,130 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	10	84,102,831 - 84,199,894 (+)	NCBI
Celera	10	79,129,126 - 79,210,141 (+)	NCBI		Celera
Cytogenetic Map	10	q26	NCBI

SPOP
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	17	49,598,884 - 49,678,163 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	17	49,598,884 - 49,678,163 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	17	47,676,246 - 47,755,525 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	45,031,245 - 45,110,524 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	17	45,031,246 - 45,110,524	NCBI
Celera	17	44,131,243 - 44,210,519 (-)	NCBI
Cytogenetic Map	17	q21.33	NCBI
HuRef	17	43,041,208 - 43,120,660 (-)	NCBI		HuRef
CHM1_1	17	47,741,302 - 47,820,599 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	17	50,462,011 - 50,541,274 (-)	NCBI

Spop
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	95,304,909 - 95,384,236 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	11	95,304,906 - 95,384,232 (+)	Ensembl
GRCm38	11	95,414,083 - 95,493,410 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	95,414,080 - 95,493,406 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	95,275,397 - 95,354,724 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	95,230,204 - 95,309,103 (+)	NCBI			mm8
Celera	11	105,038,004 - 105,132,151 (+)	NCBI		Celera
Cytogenetic Map	11	D	NCBI
cM Map	11	59.01	NCBI

Spop
(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_004955451	11,897,592 - 11,970,269 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955451	11,897,642 - 11,970,269 (+)	NCBI	ChiLan1.0	ChiLan1.0

SPOP
(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	48,417,634 - 48,495,725 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	17	48,417,634 - 48,440,623 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	17	43,685,913 - 43,765,277 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

SPOP
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	9	25,685,723 - 25,752,953 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	9	25,686,439 - 25,752,900 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	9	25,143,931 - 25,211,377 (-)	NCBI
ROS_Cfam_1.0	9	26,480,666 - 26,548,198 (-)	NCBI
ROS_Cfam_1.0 Ensembl	9	26,480,865 - 26,548,177 (-)	Ensembl
UMICH_Zoey_3.1	9	25,248,665 - 25,316,107 (-)	NCBI
UNSW_CanFamBas_1.0	9	25,507,666 - 25,575,090 (-)	NCBI
UU_Cfam_GSD_1.0	9	25,636,940 - 25,704,391 (-)	NCBI

LOC101966403
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	25,105,808 - 25,180,727 (-)	NCBI
SpeTri2.0	NW_004936490	11,894,449 - 11,969,730 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SPOP
(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	25,792,630 - 25,860,595 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	25,792,621 - 25,860,630 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	12	25,770,383 - 25,777,618 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LOC103243644
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	16	69,990,554 - 70,073,241 (-)	NCBI	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666077	41,098,933 - 41,182,120 (-)	NCBI	Vero_WHO_p1.0

Spop
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624795	5,698,131 - 5,769,209 (-)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

AU048745

Rat Assembly	Chr	Position (strand)	Source
Cytogenetic Map	5	q32	UniSTS
Cytogenetic Map	13	q24	UniSTS
Cytogenetic Map	6	q32	UniSTS
Cytogenetic Map	17	p12	UniSTS
Cytogenetic Map	16	p14	UniSTS
Cytogenetic Map	13	q26	UniSTS
Cytogenetic Map	10	q22	UniSTS
Cytogenetic Map	7	q11	UniSTS
Cytogenetic Map	8	q24	UniSTS
Cytogenetic Map	5	q21	UniSTS
Cytogenetic Map	4	q24	UniSTS
Cytogenetic Map	2	q11	UniSTS
Cytogenetic Map	1	q54	UniSTS
Cytogenetic Map	1	q36	UniSTS
Cytogenetic Map	18	p11	UniSTS
Cytogenetic Map	13	q13	UniSTS
Cytogenetic Map	10	q24	UniSTS
Cytogenetic Map	8	q31	UniSTS
Cytogenetic Map	3	q21	UniSTS
Cytogenetic Map	13	p13	UniSTS
Cytogenetic Map	1	q21	UniSTS
Cytogenetic Map	11	q23	UniSTS
Cytogenetic Map	10	q31	UniSTS
Cytogenetic Map	16	q12.2	UniSTS
Cytogenetic Map	3	q24	UniSTS
Cytogenetic Map	5	q36	UniSTS
Cytogenetic Map	3	p13	UniSTS

BE104182

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	80,438,751 - 80,438,910 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	83,311,761 - 83,311,919	NCBI	Rnor6.0
Rnor_5.0	10	83,121,675 - 83,121,833	UniSTS	Rnor5.0
RGSC_v3.4	10	84,185,298 - 84,185,456	UniSTS	RGSC3.4
Celera	10	79,210,309 - 79,210,467	UniSTS
RH 3.4 Map	10	745.3	UniSTS
Cytogenetic Map	10	q31	UniSTS

MARC_9787-9788:996688611:1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	10	80,416,972 - 80,417,655 (+)	MAPPER	mRatBN7.2
Rnor_6.0	10	83,289,985 - 83,290,667	NCBI	Rnor6.0
Rnor_5.0	10	83,099,899 - 83,100,581	UniSTS	Rnor5.0
RGSC_v3.4	10	84,163,522 - 84,164,204	UniSTS	RGSC3.4
Celera	10	79,188,532 - 79,189,214	UniSTS
Cytogenetic Map	10	q31	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
70223	Bp57	Blood pressure QTL 57	5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	1	80676123	Rat
61427	Cia16	Collagen induced arthritis QTL 16	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	6357896	96121100	Rat
2303118	Mamtr7	Mammary tumor resistance QTL 7		0.003	mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	10	9658275	104670812	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	14487011	89062041	Rat
631268	Cia21	Collagen induced arthritis QTL 21	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	14487011	104060283	Rat
2316949	Gluco60	Glucose level QTL 60	3.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	14487011	107057807	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	19816042	99406971	Rat
724556	Pur2	Proteinuria QTL 2	5.5		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	10	22427500	90627625	Rat
61354	Pia10	Pristane induced arthritis QTL 10		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
631267	Cia20	Collagen induced arthritis QTL 20	3.2		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
61325	Aia5	Adjuvant induced arthritis QTL 5		0.01	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	23444813	104060283	Rat
1298069	Bp168	Blood pressure QTL 168	5.5		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	10	26521957	98003205	Rat
631542	Bp82	Blood pressure QTL 82	6.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	26521957	98952741	Rat
1331791	Cm31	Cardiac mass QTL 31	3.84606		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	29299504	107211142	Rat
2317042	Aia20	Adjuvant induced arthritis QTL 20	3.38		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	37565079	82565079	Rat
2317043	Aia7	Adjuvant induced arthritis QTL 7	3.82		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	37565079	82565079	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	40035094	102359817	Rat
631269	Cia22	Collagen induced arthritis QTL 22	8.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	40035094	104060283	Rat
631270	Cia23	Collagen induced arthritis QTL 23	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	40035094	104060283	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	41142633	86142633	Rat
61463	Bp12	Blood pressure QTL 12	6.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	41333258	86333258	Rat
1298078	Stresp5	Stress response QTL 5	2.99	0.00025	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	10	42045676	104670812	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	42323132	87323132	Rat
70188	BpQTLcluster1	Blood pressure QTL cluster 1	4.864		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	42323132	87323132	Rat
70198	BpQTLcluster9	Blood pressure QTL cluster 9	2.94		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	42323132	87323132	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	44441699	89441699	Rat
7411614	Foco18	Food consumption QTL 18		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	10	44441699	89441699	Rat
8694173	Bw149	Body weight QTL 149	4.38	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	10	44441699	89441699	Rat
2300218	Hpcl2	Hepatic cholesterol level QTL 2			liver cholesterol amount (VT:0010498)	liver cholesterol level (CMO:0001597)	10	45029650	95600334	Rat
631547	Bp87	Blood pressure QTL 87	4.5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	47369470	92369470	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	49444551	81709989	Rat
7207811	Bmd90	Bone mineral density QTL 90	5.2		femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	10	49444551	81709989	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	49444551	81709989	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	49444551	81709989	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	49444551	81709989	Rat
1549846	Scl47	Serum cholesterol level QTL 47	3.6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	50574707	95574707	Rat
70364	Bp72	Blood pressure QTL 72			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	51121100	96121100	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	51770177	107211142	Rat
61387	Bp1	Blood pressure QTL 1	5.1		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	10	51770177	107211142	Rat
1359017	Hrtrt21	Heart rate QTL 21	2.4		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	10	51772940	96772940	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	51774612	95600334	Rat
631535	Cm51	Cardiac mass QTL 51	3		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	10	51786282	91669536	Rat
70171	Cari1	Carrageenan-induced inflammation QTL 1	4.9	0.0005	hypodermis integrity trait (VT:0010550)	inflammatory exudate volume (CMO:0001429)	10	53797385	107211142	Rat
70164	Bw21	Body weight QTL 21	4.36	0.00005	body mass (VT:0001259)	body weight (CMO:0000012)	10	53797494	98952626	Rat
1354608	Cm33	Cardiac mass QTL 33	2.8		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	10	54809292	99809292	Rat
2312662	Slep8	Serum leptin concentration QTL 8		0.05	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	10	57134272	102134272	Rat
2312668	Scl65	Serum cholesterol level QTL 65		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	10	57134272	102134272	Rat
2312672	Insul15	Insulin level QTL 15		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	10	57134272	102134272	Rat
1549831	Bss6	Bone structure and strength QTL 6	4		lumbar vertebra strength trait (VT:0010574)	vertebra ultimate force (CMO:0001678)	10	57576521	102576521	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	59209888	104209888	Rat
70363	Bp71	Blood pressure QTL 71		0.04	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	61345276	81714865	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	61345276	98211570	Rat
6893336	Cm75	Cardiac mass QTL 75	0.1	0.87	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	10	61345276	99703528	Rat
1558643	Cm44	Cardiac mass QTL 44	4.8	0.0000368	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	10	61345276	99703528	Rat
61402	Niddm3	Non-insulin dependent diabetes mellitus QTL 3	4.58		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	10	61345413	82564856	Rat
2313103	Bss80	Bone structure and strength QTL 80	2	0.0001	tibia strength trait (VT:1000284)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	10	62057807	107057807	Rat
2313105	Bss79	Bone structure and strength QTL 79	1.8	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	10	62057807	107057807	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	63221094	107211142	Rat
2298481	Eau9	Experimental allergic uveoretinitis QTL 9		0.0169	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	10	65927233	82565079	Rat
1357344	Bp249	Blood pressure QTL 249		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	66743655	98003205	Rat
2317029	Aia19	Adjuvant induced arthritis QTL 19	2.98		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	10	66978955	107211142	Rat
2317039	Aia6	Adjuvant induced arthritis QTL 6	4.31		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	10	66978955	107211142	Rat
10450498	Bp384	Blood pressure QTL 384		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	67750049	107211142	Rat
1642980	Bp300	Blood pressure QTL 300			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	68383129	107211142	Rat
61396	Bp9	Blood pressure QTL 9	4.8	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	10	68420376	107211142	Rat
2300172	Bmd57	Bone mineral density QTL 57	9.8	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	10	69738412	107211142	Rat
2293646	Bss25	Bone structure and strength QTL 25	10.96	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	10	69738412	107211142	Rat
2293663	Bss33	Bone structure and strength QTL 33	9.34	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	10	69738412	107211142	Rat
6893366	Bw106	Body weight QTL 106	0.3	0.47	body mass (VT:0001259)	body weight (CMO:0000012)	10	70199100	107211142	Rat
70193	Mcs7	Mammary carcinoma susceptibility QTL 7	2.38		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	10	72224939	107211142	Rat
2298548	Neuinf7	Neuroinflammation QTL 7	3.4		nervous system integrity trait (VT:0010566)	spinal cord RT1-B protein level (CMO:0002132)	10	72224939	107211142	Rat
2306793	Ean5	Experimental allergic neuritis QTL 5	4.7		nervous system integrity trait (VT:0010566)	IFNG-secreting splenocyte count (CMO:0002122)	10	72552416	93995749	Rat
12880053	Cm104	Cardiac mass QTL 104		0.009	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	10	73452992	83463334	Rat
1358188	Ept9	Estrogen-induced pituitary tumorigenesis QTL 9	3.9		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	10	73453136	96120911	Rat
2292617	Ept18	Estrogen-induced pituitary tumorigenesis QTL 18	3.9		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	10	73453136	96120911	Rat
12880050	Am10	Aortic mass QTL 10		0.016	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	10	74372084	84007272	Rat
1579919	Bp281	Blood pressure QTL 281		0.01	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	74372084	94965338	Rat
631537	Oia4	Oil induced arthritis QTL 4			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	10	75631887	87055282	Rat
2325836	Bp346	Blood pressure QTL 346		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	84007272	Rat
10450495	Bp383	Blood pressure QTL 383		0.002	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	94965338	Rat
2292438	Bp311	Blood pressure QTL 311			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	10	76246085	107211142	Rat
1302404	Cia27	Collagen induced arthritis QTL 27	2.6	0.0045	joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	10	76452683	107211142	Rat
4889492	Pancm2	Pancreatic morphology QTL 2	3.2		pancreatic beta cell morphology trait (VT:0005217)	ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)	10	76748906	107211142	Rat
724516	Uae17	Urinary albumin excretion QTL 17	3.6		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	10	78210622	85220348	Rat
1300107	Rf18	Renal function QTL 18	3.41		urine output (VT:0003620)	timed urine volume (CMO:0000260)	10	78775516	98279596	Rat
1358915	Stresp7	Stress response QTL 7	3.52		blood norepinephrine amount (VT:0005663)	plasma norepinephrine level (CMO:0001010)	10	78899655	87307728	Rat
634354	Rends3	Renal damage susceptibility QTL 3		0.05	kidney blood vessel morphology trait (VT:0000530)	organ lesion measurement (CMO:0000677)	10	79813789	85160854	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	130
Count of miRNA genes:	98
Interacting mature miRNAs:	117
Transcripts:	ENSRNOT00000006230
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	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001100496	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006247180	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006247182	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008767968	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017597130	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085592	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085593	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085594	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085596	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085597	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085598	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085599	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039085600	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC091435	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC166743	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473948	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214041	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ217100	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000220	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000006230 ⟹ ENSRNOP00000006230

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	80,358,224 - 80,438,557 (+)	Ensembl
Rnor_6.0 Ensembl	10	83,231,409 - 83,311,592 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000077625 ⟹ ENSRNOP00000072808

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	80,358,188 - 80,437,454 (+)	Ensembl
Rnor_6.0 Ensembl	10	83,231,238 - 83,310,660 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000100446 ⟹ ENSRNOP00000084460

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	10	80,358,124 - 80,483,955 (+)	Ensembl

RefSeq Acc Id:

NM_001100496 ⟹ NP_001093966

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,358,160 - 80,438,983 (+)	NCBI
Rnor_6.0	10	83,231,409 - 83,311,593 (+)	NCBI
Rnor_5.0	10	83,040,592 - 83,121,901 (+)	NCBI
RGSC_v3.4	10	84,099,990 - 84,185,130 (+)	RGD
Celera	10	79,129,126 - 79,210,141 (+)	RGD

Sequence:

show sequence

GTGTATCGGCGGTCCCGCAGGTCCCGGATGTTGCGGGCAGTATGAGGCGAGCGCAGGGGGACAG
GGACCAGCAGCTGTCGCCGCCGTTCTCAGGGTGAAGAAAGACCAGAAATCTTTGCCCCCTGACT
TTGGAGACCCAGTTTAACCTTCAAACTGGCGATGTCAAGGGTTCCAAGTCCTCCACCTCCGGCA
GAAATGTCGAGTGGTCCTGTTGCTGAGAGCTGGTGCTATACACAGATCAAGGTAGTGAAGTTCT
CCTACATGTGGACCATCAATAACTTTAGTTTTTGCCGGGAGGAAATGGGTGAAGTCATAAAAAG
TTCAACTTTTTCATCAGGAGCCAATGATAAGCTGAAATGGTGTTTGCGAGTAAACCCGAAGGGG
CTGGATGAGGAAAGCAAAGATTACCTGTCGCTCTACCTGTTGTTGGTCAGCTGTCCAAAGAGTG
AGGTTCGGGCCAAGTTCAAGTTCTCCATCCTGAATGCCAAGGGAGAAGAAACCAAAGCTATGGA
GAGCCAGCGAGCTTATAGGTTCGTGCAAGGCAAAGACTGGGGATTCAAAAAATTCATCCGTAGA
GATTTTCTCTTGGACGAGGCCAATGGACTTCTCCCTGATGACAAGCTCACCCTCTTCTGCGAGG
TGAGTGTAGTCCAAGACTCTGTCAATATCTCTGGGCAGAATACTATGAACATGGTAAAGGTCCC
TGAATGCCGGTTGGCTGACGAGTTAGGAGGGCTGTGGGAGAACTCTCGATTCACAGACTGCTGC
TTGTGTGTGGCTGGCCAAGAATTCCAGGCTCACAAGGCTATCTTAGCAGCTCGGTCTCCAGTTT
TCAGTGCCATGTTTGAACATGAAATGGAGGAGAGCAAAAAGAATCGGGTTGAAATTAACGATGT
AGAACCTGAAGTTTTTAAGGAAATGATGTGCTTCATCTACACGGGGAAGGCACCAAACCTTGAC
AAAATGGCTGATGATTTGCTGGCAGCTGCTGACAAGTACGCCCTGGAGCGTTTGAAGGTCATGT
GCGAGGATGCCCTCTGCAGTAACCTCTCTGTGGAGAACGCTGCAGAGATTCTCATCCTGGCTGA
CCTCCACAGCGCAGATCAGCTGAAAACCCAGGCAGTGGATTTCATCAACTATCATGCTTCGGAT
GTCTTGGAGACCTCTGGGTGGAAGTCAATGGTGGTGTCACATCCCCACTTAGTGGCAGAAGCGT
ACCGCTCTCTGGCTTCCGCACAATGCCCTTTCCTGGGGCCCCCGCGCAAACGCCTGAAGCAATC
CTAAGATCCTGCCTGTTGGGAGACTCCATTCATTTTCCAGCAGCAGCAGCCACCGTTGCTGCCA
CTGACTGCCAGGTAGACCGCGCGGTCTGTGCGGCTTTTACTCTGTGTCGGGGGAGATGGCACCA
TGGCCACCCAGACTTTAACAGCACTAAATAACTTAGGGGAGCTGGGGGAGGGAAGGGCCCAGGA
CTCGGGCCACTCAGCCTAATGAAACCCTGTTGCTCTGTCACCGTGTGCCCTTTGGCCTGACCAA
GTTTGACACTGGGATTCAGTTTAGGCGCCAGCCTCAAGCACATCCCAGCAGTGGTACTTCGGAG
AAATCAGCATCTGACTGAGCAGAACAAATCGTCAGGTGCCTGGAGCAAAAAGGAAAAAAAAAGC
AGAAACAAGTGGACATTTAGTTTTAAGAGATGGAAAAAGGAAAGAAGAAAGATTTTTTTTCGAA
AATCAGTTTGTGGATTCCAGTAGTATTTATGTTGAAAGAAGCAAATTTTAGTTCAACTGTGGAT
ATTTGTGAAAACTCCTCACCACCACCCAAGTGTCAGAAGAGCTCTCTCGCTAGCACTTACTGTT
TGCAAGAAGCCATCCTTTATCCTCTGAAAGGTGGCCCATGGCGGCAGAAGGGAGGAAGTCATCT
GATCTGGAAAGCGAGTGTTTGACAGTAGTGGCTTCTGCAGAAATTCTTACTGGTATTAAAAACT
GGAAAAAATAATTCATCCAGAATTCATACTGTCTTGATAAAAACTATGATTCTGTTTTTTAGAT
ATCGTGGAAAATGGATTTTTTTGGCATTTTTCTCTGATTTTATGTTTTCTTCCCTTCCCTTTTT
CTGAGAGAGAGGGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG
AGAGAGAGAGAAAGAGAGGAGAAACAAATACAGAAAATACATAAAACGAAAAGAAGAGAAAAGG
AAATTTTATTATTATTGCTATGTGAAAAAAAATCTCAGCCCAGATGGCCTGGCTGTTTGTACCT
GACTCGTCGCCTGCATAGGAGCCGGTCCTGTCACTTCTGATTAGCCCCTCTTCCAAAGGGGAGA
CTTCAAATGTTAACTTTTTCTTTTTGAAAATATAAATAATTACTATTTTGTACTGTGTGGTAAA
AAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_008767968 ⟹ XP_008766190

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,358,171 - 80,438,977 (+)	NCBI
Rnor_6.0	10	83,231,304 - 83,311,987 (+)	NCBI

Sequence:

show sequence

TGTGTGTGTGTGTGTGGTGTGTGTGTGGTGTGTGTGGTGTGTGTGTGTGTATGTGTGTGTGTGT
GTGTGTGTTTGTATGTGTGTGCGCGCTCCAAGAGTGTATTTGTGTATCGGCGGTCCCGCAGGTC
CCGGATGTTGCGGGCAGTATGAGGCGAGCGCAGGGGGACAGGGACCAGCAGCTGTCGCCGCCGT
TCTCAGAAATTTCCTGCTAGACAAGAAAAATTAGAGTTTTCCTACAGATTTGACTTGGGTGAAG
AAAGACCAGAAATCTTTGCCCCCTGACTTTGGAGACCCAGTTTAACCTTCAAACTGGCGATGTC
AAGGGTTCCAAGTCCTCCACCTCCGGCAGAAATGTCGAGTGGTCCTGTTGCTGAGAGCTGGTGC
TATACACAGATCAAGGTAGTGAAGTTCTCCTACATGTGGACCATCAATAACTTTAGTTTTTGCC
GGGAGGAAATGGGTGAAGTCATAAAAAGTTCAACTTTTTCATCAGGAGCCAATGATAAGCTGAA
ATGGTGTTTGCGAGTAAACCCGAAGGGGCTGGATGAGGAAAGCAAAGATTACCTGTCGCTCTAC
CTGTTGTTGGTCAGCTGTCCAAAGAGTGAGGTTCGGGCCAAGTTCAAGTTCTCCATCCTGAATG
CCAAGGGAGAAGAAACCAAAGCTATGGAGAGCCAGCGAGCTTATAGGTTCGTGCAAGGCAAAGA
CTGGGGATTCAAAAAATTCATCCGTAGAGATTTTCTCTTGGACGAGGCCAATGGACTTCTCCCT
GATGACAAGCTCACCCTCTTCTGCGAGGTGAGTGTAGTCCAAGACTCTGTCAATATCTCTGGGC
AGAACACTATGAACATGGTAAAGGTCCCTGAATGCCGGTTGGCTGACGAGTTAGGAGGGCTGTG
GGAGAACTCTCGATTCACAGACTGCTGCTTGTGTGTGGCTGGCCAAGAATTCCAGGCTCACAAG
GCTATCTTAGCAGCTCGGTCTCCAGTTTTCAGTGCCATGTTTGAACATGAAATGGAGGAGAGCA
AAAAGAATCGGGTTGAAATTAACGATGTAGAACCTGAAGTTTTTAAGGAAATGATGTGCTTCAT
CTACACGGGGAAGGCACCAAACCTTGACAAAATGGCTGATGATTTGCTGGCAGCTGCTGACAAG
TACGCCCTGGAGCGTTTGAAGGTCATGTGCGAGGATGCCCTCTGCAGTAACCTCTCTGTGGAGA
ACGCTGCAGAGATTCTCATCCTGGCTGACCTCCACAGCGCAGATCAGCTGAAAACCCAGGCAGT
GGATTTCATCAACTATCATGCTTCGGATGTCTTGGAGACCTCTGGGTGGAAGTCAATGGTGGTG
TCACATCCCCACTTAGTGGCAGAAGCGTACCGCTCTCTGGCTTCCGCACAATGCCCTTTCCTGG
GGCCCCCGCGCAAACGCCTGAAGCAATCCTAAGATCCTGCCTGTTGGGAGACTCCATTCATTTT
CCAGCAGCAGCAGCCACCGTTGCTGCCACTGACTGCCAGGTAGACCGCGCGGTCTGTGCGGCTT
TTACTCTGTGTCGGGGGAGATGGCACCATGGCCACCCAGACTTTAACAGCACTAAATAACTTAG
GGGAGCTGGGGGAGGGAAGGGCCCAGGACTCGGGCCACTCAGCCTAATGAAACCCTGTTGCTCT
GTCACCGTGTGCCCTTTGGCCTGACCAAGTTTGACACTGGGATTCAGTTTAGGCGCCAGCCTCA
AGCACATCCCAGCAGTGGTACTTCGGAGAAATCAGCATCTGACTGAGCAGAACAAATCGTCAGG
TGCCTGGAGCAAAAAGGAAAAAAAAAGCAGAAACAAGTGGACATTTAGTTTTAAGAGATGGAAA
AAGGAAAGAAGAAAGATTTTTTTTCGAAAATCAGTTTGTGGATTCCAGTAGTATTTATGTTGAA
AGAAGCAAATTTTAGTTCAACTGTGGATATTTGTGAAAACTCCTCACCACCACCCAAGTGTCAG
AAGAGCTCTCTCGCTAGCACTTACTGTTTGCAAGAAGCCATCCTTTATCCTCTGAAAGGTGGCC
CATGGCGGCAGAAGGGAGGAAGTCATCTGATCTGGAAAGCGAGTGTTTGACAGTAGTGGCTTCT
GCAGAAATTCTTACTGGTATTAAAAACTGGAAAAAATAATTCATCCAGAATTCATACTGTCTTG
ATAAAAACTATGATTCTGTTTTTTAGATATCGTGGAAAATGGATTTTTTTGGCATTTTTCTCTG
ATTTTATGTTTTCTTCCCTTCCCTTTTTCTGAGAGAGAGGGAGAGAGAGAGGAGAGAGAGAGAG
AGAGAGAGAGAGAGAGAAAGAGAAAGAGAGGAGAAACAAATACAGAAAATACATAAAACGAAAA
GAAGAGAAAAGGAAATTTTATTATTATTGCTATGTGAAAAAAAATCCCAGCCCAGATGGCCTGG
CTGTTTGTACCTGACTCGTCGCCTGCATAGGAGCCGGTCCTGTCACTTCTGATTAGCCCCTCTT
CCAAAGGGGAGACTTCAAATGTTAACTTTTTCTTTTTGAAAATATAAATAATTACTATTTTGTA
CTGTGTGGTATCTCTGGTCTTTTGTTTCATTCACTTGGCTTGCCTCTTGGGTCTCAGTTTCTTG
CTTGTGAGATTTCGAAGCCCTGGTTTGAGCTTCGTCTTGCAGGGATTATGTTCAGAATGTCTAA
GAAGCAGTAGGGAGTTATTTACTCTCCATAGTCTCAAGTTTTCTTTGTGAGCTCAGCATCTGCC
AGTCTTTTGTCCTCCTTGAGGTTCTGCCAACCATGTCCTGGTGAGAGTCTGGGACCAGGTCCCA
CTCCACCAAGGCAAACAATTGTAGTGGGCTTCTTCTGCACCCTGTGTGTGTTAATACCTGATCC
CAAATCTCCTTTCTCCTAACAAAATAAAAAGAAATATTTAGGGGTCATGAACATGGAGATTAAA
TAAAGGGAAATTGTTGTGTC

hide sequence

RefSeq Acc Id:

XM_017597130 ⟹ XP_017452619

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,358,165 - 80,438,977 (+)	NCBI
Rnor_6.0	10	83,231,268 - 83,311,987 (+)	NCBI

Sequence:

show sequence

CCCAGGCCGGTGTGTGTCGGTCCCGGATGTTGCGGGCAGTATGAGGCGAGCGCAGGGGGACAGG
GACCAGCAGCTGTCGCCGCCGTTCTCAGGGTGAAGAAAGACCAGAAATCTTTGCCCCCTGACTT
TGGAGACCCAGTTTAACCTTCAAACTGGCGATGTCAAGGGTTCCAAGTCCTCCACCTCCGGCAG
AAATGTCGAGTGGTCCTGTTGCTGAGAGCTGGTGCTATACACAGATCAAGGTAGTGAAGTTCTC
CTACATGTGGACCATCAATAACTTTAGTTTTTGCCGGGAGGAAATGGGTGAAGTCATAAAAAGT
TCAACTTTTTCATCAGGAGCCAATGATAAGCTGAAATGGTGTTTGCGAGTAAACCCGAAGGGGC
TGGATGAGGAAAGCAAAGATTACCTGTCGCTCTACCTGTTGTTGGTCAGCTGTCCAAAGAGTGA
GGTTCGGGCCAAGTTCAAGTTCTCCATCCTGAATGCCAAGGGAGAAGAAACCAAAGCTATGGAG
AGCCAGCGAGCTTATAGGTTCGTGCAAGGCAAAGACTGGGGATTCAAAAAATTCATCCGTAGAG
ATTTTCTCTTGGACGAGGCCAATGGACTTCTCCCTGATGACAAGCTCACCCTCTTCTGCGAGGT
GAGTGTAGTCCAAGACTCTGTCAATATCTCTGGGCAGAACACTATGAACATGGTAAAGGTCCCT
GAATGCCGGTTGGCTGACGAGTTAGGAGGGCTGTGGGAGAACTCTCGATTCACAGACTGCTGCT
TGTGTGTGGCTGGCCAAGAATTCCAGGCTCACAAGGCTATCTTAGCAGCTCGGTCTCCAGTTTT
CAGTGCCATGTTTGAACATGAAATGGAGGAGAGCAAAAAGAATCGGGTTGAAATTAACGATGTA
GAACCTGAAGTTTTTAAGGAAATGATGTGCTTCATCTACACGGGGAAGGCACCAAACCTTGACA
AAATGGCTGATGATTTGCTGGCAGCTGCTGACAAGTACGCCCTGGAGCGTTTGAAGGTCATGTG
CGAGGATGCCCTCTGCAGTAACCTCTCTGTGGAGAACGCTGCAGAGATTCTCATCCTGGCTGAC
CTCCACAGCGCAGATCAGCTGAAAACCCAGGCAGTGGATTTCATCAACTATCATGCTTCGGATG
TCTTGGAGACCTCTGGGTGGAAGTCAATGGTGGTGTCACATCCCCACTTAGTGGCAGAAGCGTA
CCGCTCTCTGGCTTCCGCACAATGCCCTTTCCTGGGGCCCCCGCGCAAACGCCTGAAGCAATCC
TAAGATCCTGCCTGTTGGGAGACTCCATTCATTTTCCAGCAGCAGCAGCCACCGTTGCTGCCAC
TGACTGCCAGGTAGACCGCGCGGTCTGTGCGGCTTTTACTCTGTGTCGGGGGAGATGGCACCAT
GGCCACCCAGACTTTAACAGCACTAAATAACTTAGGGGAGCTGGGGGAGGGAAGGGCCCAGGAC
TCGGGCCACTCAGCCTAATGAAACCCTGTTGCTCTGTCACCGTGTGCCCTTTGGCCTGACCAAG
TTTGACACTGGGATTCAGTTTAGGCGCCAGCCTCAAGCACATCCCAGCAGTGGTACTTCGGAGA
AATCAGCATCTGACTGAGCAGAACAAATCGTCAGGTGCCTGGAGCAAAAAGGAAAAAAAAAGCA
GAAACAAGTGGACATTTAGTTTTAAGAGATGGAAAAAGGAAAGAAGAAAGATTTTTTTTCGAAA
ATCAGTTTGTGGATTCCAGTAGTATTTATGTTGAAAGAAGCAAATTTTAGTTCAACTGTGGATA
TTTGTGAAAACTCCTCACCACCACCCAAGTGTCAGAAGAGCTCTCTCGCTAGCACTTACTGTTT
GCAAGAAGCCATCCTTTATCCTCTGAAAGGTGGCCCATGGCGGCAGAAGGGAGGAAGTCATCTG
ATCTGGAAAGCGAGTGTTTGACAGTAGTGGCTTCTGCAGAAATTCTTACTGGTATTAAAAACTG
GAAAAAATAATTCATCCAGAATTCATACTGTCTTGATAAAAACTATGATTCTGTTTTTTAGATA
TCGTGGAAAATGGATTTTTTTGGCATTTTTCTCTGATTTTATGTTTTCTTCCCTTCCCTTTTTC
TGAGAGAGAGGGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAAAGAGA
GGAGAAACAAATACAGAAAATACATAAAACGAAAAGAAGAGAAAAGGAAATTTTATTATTATTG
CTATGTGAAAAAAAATCCCAGCCCAGATGGCCTGGCTGTTTGTACCTGACTCGTCGCCTGCATA
GGAGCCGGTCCTGTCACTTCTGATTAGCCCCTCTTCCAAAGGGGAGACTTCAAATGTTAACTTT
TTCTTTTTGAAAATATAAATAATTACTATTTTGTACTGTGTGGTATCTCTGGTCTTTTGTTTCA
TTCACTTGGCTTGCCTCTTGGGTCTCAGTTTCTTGCTTGTGAGATTTCGAAGCCCTGGTTTGAG
CTTCGTCTTGCAGGGATTATGTTCAGAATGTCTAAGAAGCAGTAGGGAGTTATTTACTCTCCAT
AGTCTCAAGTTTTCTTTGTGAGCTCAGCATCTGCCAGTCTTTTGTCCTCCTTGAGGTTCTGCCA
ACCATGTCCTGGTGAGAGTCTGGGACCAGGTCCCACTCCACCAAGGCAAACAATTGTAGTGGGC
TTCTTCTGCACCCTGTGTGTGTTAATACCTGATCCCAAATCTCCTTTCTCCTAACAAAATAAAA
AGAAATATTTAGGGGTCATGAACATGGAGATTAAATAAAGGGAAATTGTTGTGTC

hide sequence

RefSeq Acc Id:

XM_039085592 ⟹ XP_038941520

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,358,165 - 80,438,977 (+)	NCBI

RefSeq Acc Id:

XM_039085593 ⟹ XP_038941521

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,402,224 - 80,438,977 (+)	NCBI

RefSeq Acc Id:

XM_039085594 ⟹ XP_038941522

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,402,157 - 80,438,977 (+)	NCBI

RefSeq Acc Id:

XM_039085596 ⟹ XP_038941524

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,358,121 - 80,438,977 (+)	NCBI

RefSeq Acc Id:

XM_039085597 ⟹ XP_038941525

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,358,165 - 80,438,977 (+)	NCBI

RefSeq Acc Id:

XM_039085598 ⟹ XP_038941526

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,379,632 - 80,438,977 (+)	NCBI

RefSeq Acc Id:

XM_039085599 ⟹ XP_038941527

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,362,460 - 80,438,977 (+)	NCBI

RefSeq Acc Id:

XM_039085600 ⟹ XP_038941528

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	10	80,358,219 - 80,438,977 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001093966	(Get FASTA)	NCBI Sequence Viewer
	XP_008766190	(Get FASTA)	NCBI Sequence Viewer
	XP_017452619	(Get FASTA)	NCBI Sequence Viewer
	XP_038941520	(Get FASTA)	NCBI Sequence Viewer
	XP_038941521	(Get FASTA)	NCBI Sequence Viewer
	XP_038941522	(Get FASTA)	NCBI Sequence Viewer
	XP_038941524	(Get FASTA)	NCBI Sequence Viewer
	XP_038941525	(Get FASTA)	NCBI Sequence Viewer
	XP_038941526	(Get FASTA)	NCBI Sequence Viewer
	XP_038941527	(Get FASTA)	NCBI Sequence Viewer
	XP_038941528	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH91435	(Get FASTA)	NCBI Sequence Viewer
	AAI66743	(Get FASTA)	NCBI Sequence Viewer
	EDM05757	(Get FASTA)	NCBI Sequence Viewer
	EDM05758	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001093966 ⟸ NM_001100496

- UniProtKB:

B2RYD9 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSRVPSPPPPAEMSSGPVAESWCYTQIKVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDK
LKWCLRVNPKGLDEESKDYLSLYLLLVSCPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQG
KDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDSVNISGQNTMNMVKVPECRLADELGG
LWENSRFTDCCLCVAGQEFQAHKAILAARSPVFSAMFEHEMEESKKNRVEINDVEPEVFKEMMC
FIYTGKAPNLDKMADDLLAAADKYALERLKVMCEDALCSNLSVENAAEILILADLHSADQLKTQ
AVDFINYHASDVLETSGWKSMVVSHPHLVAEAYRSLASAQCPFLGPPRKRLKQS

hide sequence

RefSeq Acc Id:	XP_008766190 ⟸ XM_008767968
- Peptide Label:	isoform X1
- UniProtKB:	B2RYD9 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSRVPSPPPPAEMSSGPVAESWCYTQIKVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDK LKWCLRVNPKGLDEESKDYLSLYLLLVSCPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQG KDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDSVNISGQNTMNMVKVPECRLADELGG LWENSRFTDCCLCVAGQEFQAHKAILAARSPVFSAMFEHEMEESKKNRVEINDVEPEVFKEMMC FIYTGKAPNLDKMADDLLAAADKYALERLKVMCEDALCSNLSVENAAEILILADLHSADQLKTQ AVDFINYHASDVLETSGWKSMVVSHPHLVAEAYRSLASAQCPFLGPPRKRLKQS hide sequence

RefSeq Acc Id:	XP_017452619 ⟸ XM_017597130
- Peptide Label:	isoform X1
- UniProtKB:	B2RYD9 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSRVPSPPPPAEMSSGPVAESWCYTQIKVVKFSYMWTINNFSFCREEMGEVIKSSTFSSGANDK LKWCLRVNPKGLDEESKDYLSLYLLLVSCPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQG KDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDSVNISGQNTMNMVKVPECRLADELGG LWENSRFTDCCLCVAGQEFQAHKAILAARSPVFSAMFEHEMEESKKNRVEINDVEPEVFKEMMC FIYTGKAPNLDKMADDLLAAADKYALERLKVMCEDALCSNLSVENAAEILILADLHSADQLKTQ AVDFINYHASDVLETSGWKSMVVSHPHLVAEAYRSLASAQCPFLGPPRKRLKQS hide sequence

RefSeq Acc Id:

ENSRNOP00000006230 ⟸ ENSRNOT00000006230

RefSeq Acc Id:

ENSRNOP00000072808 ⟸ ENSRNOT00000077625

RefSeq Acc Id:	XP_038941524 ⟸ XM_039085596
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038941520 ⟸ XM_039085592
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038941525 ⟸ XM_039085597
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038941528 ⟸ XM_039085600
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038941527 ⟸ XM_039085599
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038941526 ⟸ XM_039085598
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038941522 ⟸ XM_039085594
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038941521 ⟸ XM_039085593
- Peptide Label:	isoform X1

RefSeq Acc Id:

ENSRNOP00000084460 ⟸ ENSRNOT00000100446

Protein Domains

BTB MATH

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-B2RYD9-F1-model_v2	AlphaFold	B2RYD9	1-374	view protein structure

Transcriptome

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

Promoters

RGD ID:

13697630

Promoter ID:

EPDNEW_R8144

Type:

initiation region

Name:

Spop_1

Description:

speckle type BTB/POZ protein

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	83,231,263 - 83,231,323	EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)

ACI/EurMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN-Lx/CubMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BUF/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH2/CubMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH3/CubMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

DA/OlaHsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/DuCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE16/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE18/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GK/FarMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB10/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEW/Crl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF10A/StmMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF11/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1A/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1C/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF2B/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF3/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF4/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LH/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LL/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LN/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/NRrrcMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MR/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MWF/Hsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

PVG/Seac (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHR/OlalpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/A3NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SR/JrHsd (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SS/JrHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WAG/RijCrl (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WN/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1311613	AgrOrtholog
BioCyc Gene	G2FUF-23542	BioCyc
Ensembl Genes	ENSRNOG00000004686	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000006230	ENTREZGENE
	ENSRNOP00000006230.4	UniProtKB/TrEMBL
	ENSRNOP00000072808	ENTREZGENE
	ENSRNOP00000072808.2	UniProtKB/TrEMBL
	ENSRNOP00000084460	ENTREZGENE
	ENSRNOP00000084460.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000006230	ENTREZGENE
	ENSRNOT00000006230.6	UniProtKB/TrEMBL
	ENSRNOT00000077625	ENTREZGENE
	ENSRNOT00000077625.2	UniProtKB/TrEMBL
	ENSRNOT00000100446	ENTREZGENE
	ENSRNOT00000100446.1	UniProtKB/TrEMBL
Gene3D-CATH	2.60.210.10	UniProtKB/TrEMBL
	3.30.710.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7368091	IMAGE-MGC_LOAD
	IMAGE:7938440	IMAGE-MGC_LOAD
InterPro	BTB/POZ-like	UniProtKB/TrEMBL
	BTB/POZ_fold	UniProtKB/TrEMBL
	MATH	UniProtKB/TrEMBL
	SPOP_C	UniProtKB/TrEMBL
	TRAF-like	UniProtKB/TrEMBL
KEGG Report	rno:287643	UniProtKB/TrEMBL
MGC_CLONE	MGC:109643	IMAGE-MGC_LOAD
	MGC:188472	IMAGE-MGC_LOAD
NCBI Gene	287643	ENTREZGENE
Pfam	BTB	UniProtKB/TrEMBL
	MATH	UniProtKB/TrEMBL
PhenoGen	Spop	PhenoGen
PROSITE	BTB	UniProtKB/TrEMBL
	MATH	UniProtKB/TrEMBL
SMART	BTB	UniProtKB/TrEMBL
	MATH	UniProtKB/TrEMBL
Superfamily-SCOP	BTB/POZ_fold	UniProtKB/TrEMBL
UniProt	A0A0G2K3W8_RAT	UniProtKB/TrEMBL
	B2RYD9	ENTREZGENE, UniProtKB/TrEMBL
	F7EK37_RAT	UniProtKB/TrEMBL
	Q5BJL3_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-17	Spop	speckle type BTB/POZ protein	Spop	speckle-type POZ protein	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Spop	speckle-type POZ protein	Spop_predicted	speckle-type POZ protein (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Spop_predicted	speckle-type POZ protein (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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

Imported Annotations - PID (archival)