Rnf40 (ring finger protein 40) - Rat Genome Database

Name: Rnf40
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Rnf40 (ring finger protein 40) Rattus norvegicus

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Symbol:

Rnf40

Name:

ring finger protein 40

RGD ID:

628638

Description:

Enables syntaxin-1 binding activity; ubiquitin conjugating enzyme binding activity; and ubiquitin-protein transferase activity. Involved in positive regulation of protein metabolic process; response to peptide hormone; and ubiquitin-dependent protein catabolic process. Part of protein-containing complex. Biomarker of nephrogenic diabetes insipidus. Orthologous to human RNF40 (ring finger protein 40); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 3-chloropropane-1,2-diol.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

BRE1-B; E3 ubiquitin-protein ligase BRE1B; protein staring; ring finger protein 40, E3 ubiquitin protein ligase; RING-type E3 ubiquitin transferase BRE1B; staring protein; syntaxin-1-interacting RING finger protein

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	RNF40 (ring finger protein 40)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Rnf40 (ring finger protein 40)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Rnf40 (ring finger protein 40)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	RNF40 (ring finger protein 40)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	RNF40 (ring finger protein 40)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Rnf40 (ring finger protein 40)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	RNF40 (ring finger protein 40)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	RNF40 (ring finger protein 40)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Rnf40 (ring finger protein 40)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	RNF40 (ring finger protein 40)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Rnf40 (ring finger protein 40)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	rnf40 (ring finger protein 40)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Bre1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	BRE1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	rfp-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	rnf40	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|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
GRCr8	1	191,632,988 - 191,649,231 (+)	NCBI		GRCr8
mRatBN7.2	1	182,202,475 - 182,217,899 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	182,202,600 - 182,217,241 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	190,553,185 - 190,567,813 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	197,739,267 - 197,753,895 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	190,409,749 - 190,424,381 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	199,037,472 - 199,052,823 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	199,037,544 - 199,052,172 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	206,060,115 - 206,075,465 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	186,876,103 - 186,890,731 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	187,025,983 - 187,040,612 (+)	NCBI
Celera	1	179,854,408 - 179,869,050 (+)	NCBI		Celera
Cytogenetic Map	1	q37	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

branched-chain keto acid dehydrogenase kinase deficiency (ISO)

dilated cardiomyopathy (ISO)

generalized epilepsy with febrile seizures plus 9 (ISO)

nephrogenic diabetes insipidus (IEP)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

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

2,4,6-tribromophenol (ISO)

2,4-dinitrotoluene (EXP)

2-methylcholine (ISO)

3,3',5,5'-tetrabromobisphenol A (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-chloropropane-1,2-diol (EXP)

4,4'-sulfonyldiphenol (ISO)

acrylamide (EXP)

aflatoxin B1 (ISO)

ammonium chloride (EXP)

aristolochic acid A (ISO)

benzo[a]pyrene (ISO)

beta-lapachone (ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

caffeine (ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

copper(II) chloride (ISO)

decabromodiphenyl ether (ISO)

Dibutyl phosphate (ISO)

disodium selenite (ISO)

doxorubicin (ISO)

elemental selenium (ISO)

epoxiconazole (ISO)

flavonoids (EXP)

folic acid (ISO)

gentamycin (EXP)

ivermectin (ISO)

lithium chloride (EXP)

miconazole (ISO)

ozone (ISO)

paracetamol (ISO)

perfluorohexanesulfonic acid (ISO)

selenium atom (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

tetrahydropalmatine (ISO)

thiram (ISO)

titanium dioxide (ISO)

tungsten (ISO)

urethane (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chromatin organization (IEA)

positive regulation of proteasomal protein catabolic process (IDA)

positive regulation of protein polyubiquitination (IDA)

positive regulation of transcription by RNA polymerase II (IEA,ISO)

protein ubiquitination (IEA)

regulation of mitotic cell cycle (ISO)

response to peptide hormone (IEP)

ubiquitin-dependent protein catabolic process (IDA)

Cellular Component

HULC complex (IBA,IEA,ISO,ISS)

nucleoplasm (IEA,ISO)

nucleus (IBA,IEA,ISO)

protein-containing complex (IDA)

ubiquitin ligase complex (ISO)

Molecular Function

metal ion binding (IEA)

mRNA 3'-UTR binding (IEA,ISO)

protein binding (IPI,ISO)

protein homodimerization activity (IEA,ISO)

syntaxin-1 binding (IPI)

ubiquitin conjugating enzyme binding (IDA)

ubiquitin protein ligase activity (IBA)

ubiquitin protein ligase binding (IEA,ISO)

ubiquitin-protein transferase activity (IDA,IEA,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

ataxia telangiectasia-mutated (ATM) signaling pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Staring, a novel E3 ubiquitin-protein ligase that targets syntaxin 1 for degradation.	Chin LS, etal., J Biol Chem 2002 Sep 20;277(38):35071-9.
2.	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.
3.	E3 ubiquitin-protein ligases in rat kidney collecting duct: response to vasopressin stimulation and withdrawal.	Lee YJ, etal., Am J Physiol Renal Physiol. 2011 Oct;301(4):F883-96. doi: 10.1152/ajprenal.00117.2011. Epub 2011 Jul 6.
4.	GOA pipeline	RGD automated data pipeline
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	The ATM signaling network in development and disease.	Stracker TH, etal., Front Genet. 2013 Mar 25;4:37. doi: 10.3389/fgene.2013.00037. eCollection 2013.

Additional References at PubMed

PMID:10944455	PMID:16307923	PMID:19410543	PMID:19575011	PMID:19946888

Genomics

Comparative Map Data

Rnf40
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	191,632,988 - 191,649,231 (+)	NCBI		GRCr8
mRatBN7.2	1	182,202,475 - 182,217,899 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	182,202,600 - 182,217,241 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	190,553,185 - 190,567,813 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	197,739,267 - 197,753,895 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	190,409,749 - 190,424,381 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	199,037,472 - 199,052,823 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	199,037,544 - 199,052,172 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	206,060,115 - 206,075,465 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	186,876,103 - 186,890,731 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	187,025,983 - 187,040,612 (+)	NCBI
Celera	1	179,854,408 - 179,869,050 (+)	NCBI		Celera
Cytogenetic Map	1	q37	NCBI

RNF40
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	16	30,761,612 - 30,776,307 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	16	30,761,745 - 30,776,307 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	16	30,772,933 - 30,787,628 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	16	30,681,131 - 30,694,040 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	16	30,681,130 - 30,694,037	NCBI
Celera	16	29,510,882 - 29,523,813 (-)	NCBI		Celera
Cytogenetic Map	16	p11.2	NCBI
HuRef	16	28,335,742 - 28,350,458 (+)	NCBI		HuRef
CHM1_1	16	32,090,075 - 32,104,789 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	16	31,149,033 - 31,163,750 (+)	NCBI		T2T-CHM13v2.0

Rnf40
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	127,187,936 - 127,202,777 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	127,187,939 - 127,203,971 (+)	Ensembl		GRCm39 Ensembl
GRCm38	7	127,588,698 - 127,603,605 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	127,588,767 - 127,604,799 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	134,732,212 - 134,747,119 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	127,379,932 - 127,394,734 (+)	NCBI		MGSCv36	mm8
Celera	7	127,433,606 - 127,448,511 (+)	NCBI		Celera
Cytogenetic Map	7	F3	NCBI
cM Map	7	69.61	NCBI

Rnf40
(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_004955493	7,627,189 - 7,640,711 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955493	7,627,189 - 7,640,711 (+)	NCBI	ChiLan1.0	ChiLan1.0

RNF40
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	18	33,966,965 - 33,980,623 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	16	38,768,443 - 38,782,045 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	16	24,194,293 - 24,207,460 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	16	31,129,324 - 31,142,280 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	16	31,129,352 - 31,142,280 (+)	Ensembl	panpan1.1		panPan2

RNF40
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	17,402,022 - 17,414,494 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	6	17,402,908 - 17,414,362 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	18,977,026 - 18,989,411 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	17,533,820 - 17,546,211 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	6	17,533,822 - 17,546,112 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	6	17,334,097 - 17,346,480 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	17,251,795 - 17,264,178 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	17,564,600 - 17,576,985 (-)	NCBI		UU_Cfam_GSD_1.0

Rnf40
(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_024409344	125,057,113 - 125,069,351 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936501	13,154,999 - 13,167,199 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936501	13,154,963 - 13,167,211 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

RNF40
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	17,622,319 - 17,639,900 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	17,622,309 - 17,635,990 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	18,068,620 - 18,082,435 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

RNF40
(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	5	27,449,633 - 27,462,591 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	5	27,449,908 - 27,463,754 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666068	2,012,761 - 2,025,724 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rnf40
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624782	13,884,830 - 13,896,500 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624782	13,884,737 - 13,896,496 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Rnf40
50 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	73
Count of miRNA genes:	59
Interacting mature miRNAs:	69
Transcripts:	ENSRNOT00000025499
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.

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
1578778	Pur4	Proteinuria QTL 4	3.3	0.003	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	1	150700247	252085048	Rat
1354646	Kidm18	Kidney mass QTL 18	5.7		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	151162512	256448636	Rat
1578780	Cm52	Cardiac mass QTL 52	3.3	0.0001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	1	81591954	219808434	Rat
1354652	Kidm20	Kidney mass QTL 20	4.3		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	177227632	256448636	Rat
2302378	Insul11	Insulin level QTL 11	3.25		blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	1	144267353	251128347	Rat
1354653	Despr9	Despair related QTL 9		0.00019	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	1	167909849	212909849	Rat
1578770	Stresp23	Stress response QTL 23			kidney sympathetic nerve activity (VT:0004050)	stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)	1	123350408	182418476	Rat
2293673	Bss27	Bone structure and strength QTL 27	18.63	0.0001	femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	1	171629477	216629477	Rat
2293677	Bss41	Bone structure and strength QTL 41	9.38	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	1	171629477	216629477	Rat
1302787	Stl25	Serum triglyceride level QTL 25	2.7	0.0073	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	1	180359209	210702199	Rat
70160	Bw18	Body weight QTL 18	5.7		body mass (VT:0001259)	body weight (CMO:0000012)	1	144267353	196383668	Rat
1549830	Bss1	Bone structure and strength QTL 1	4.8		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	1	172609619	217609619	Rat
70163	Bw20	Body weight QTL 20	5.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	174133260	219133260	Rat
7794788	Mcs32	Mammary carcinoma susceptibility QTL 32	2.61		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	1	115540693	238914717	Rat
1578763	Kidm29	Kidney mass QTL 29	3.3	0.0001	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	1	179567751	260522016	Rat
1354624	Cm35	Cardiac mass QTL35	5.7		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	177227632	256448636	Rat
1558658	Bw59	Body weight QTL 59	3.5	0.0003	body mass (VT:0001259)	body weight (CMO:0000012)	1	178784622	223784622	Rat
1354636	Lmblg1	Limb length QTL 1	6.4		tibia length (VT:0004357)	tibia length (CMO:0000450)	1	151162512	201278233	Rat
1549837	Hcar15	Hepatocarcinoma resistance QTL 15		0.05	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	153136852	260522016	Rat
2293689	Bss47	Bone structure and strength QTL 47	7.25	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	1	171629477	216629477	Rat
152025235	Bw194	Body weight QTL 194	4.86		body mass (VT:0001259)		1	123556856	242907031	Rat
1598853	Memor3	Memory QTL 3	4.5		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	1	143506580	212458660	Rat
61341	Bp26	Blood pressure QTL 26			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	169537671	214537671	Rat
1354634	Kidm12	Kidney mass QTL 12	3.9		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	1	151162512	201278233	Rat
4889428	Stresp24	Stress response QTL 24		0.05	heart pumping trait (VT:2000009)	absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)	1	155866514	200866514	Rat
2293693	Bss22	Bone structure and strength QTL 22	33.52	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	1	171629477	216629477	Rat
1578759	Uae30	Urinary albumin excretion QTL 30	3.3	0.003	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	150700247	252085048	Rat
61343	Bp28	Blood pressure QTL 28			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	151646613	196646613	Rat
152025232	Bw192	Body weight QTL 192	3.93		body mass (VT:0001259)		1	117917486	196963478	Rat
2300161	Bmd43	Bone mineral density QTL 43	8.4	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	171629477	216629477	Rat
61347	Bp197	Blood pressure QTL 197	4.2		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	1	158633083	203633083	Rat
61348	Bp30	Blood pressure QTL 30	2.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	144017057	197814409	Rat
2303622	Vencon6	Ventilatory control QTL 6		0.001	respiration trait (VT:0001943)	respiration rate (CMO:0000289)	1	154561505	199561505	Rat
8655649	Arrd1	Age-related retinal degeneration QTL 1	4.89		retinal layer morphology trait (VT:0003727)	percentage of study population developing retinopathy during a period of time (CMO:0002453)	1	100357752	183970443	Rat
631214	Bw61	Body weight QTL61	3.4	0.0001	intramuscular adipose amount (VT:0010044)	intramuscular fat area (CMO:0001162)	1	173108781	218108781	Rat
7771612	Cm80	Cardiac mass QTL 80	8.4		heart left ventricle mass (VT:0007031)	heart left ventricle weight (CMO:0000776)	1	149448574	221264292	Rat
731168	Bp154	Blood pressure QTL 154	3.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	94642644	214537671	Rat
631205	Bp196	Blood pressure QTL 196	4	0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	118944897	199050459	Rat
2300174	Bmd42	Bone mineral density QTL 42	8.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	bone mineral density (CMO:0001226)	1	171629477	216629477	Rat
1300158	Bp173	Blood pressure QTL 173	3.48		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	1	115540693	185145286	Rat
737828	Hcas3	Hepatocarcinoma susceptibility QTL 3	4.9		liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	1	144267353	222987745	Rat
1331749	Hrtrt11	Heart rate QTL 11	2.973		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	1	94494440	198211706	Rat
1354661	Bw33	Body weight QTL 33	5.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	256448636	Rat
737977	Bp160	Blood pressure QTL 160		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	181133855	226133855	Rat
1358886	Bp260	Blood pressure QTL 260	3.67		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	151162766	225824951	Rat
2293654	Bss30	Bone structure and strength QTL 30	32.65	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	1	171629477	216629477	Rat
724531	Uae5	Urinary albumin excretion QTL 5	4		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	1	150700142	252085212	Rat
2300187	Bmd41	Bone mineral density QTL 41	8.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	171629477	216629477	Rat
1641895	Bp298	Blood pressure QTL 298			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	123350408	182418476	Rat
70209	Niddm23	Non-insulin dependent diabetes mellitus QTL 23	2.82		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	94494440	198324465	Rat
1354580	Scort1	Serum corticosterone level QTL 1	3.4		blood corticosterone amount (VT:0005345)	blood corticosterone level (CMO:0001172)	1	156677124	256448636	Rat
1358294	Bw37	Body weight QTL 37	5	0.000011	body mass (VT:0001259)	body weight (CMO:0000012)	1	171310381	216310381	Rat
61378	Bp43	Blood pressure QTL 43	22.6		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	181746937	196383668	Rat
634314	Niddm44	Non-insulin dependent diabetes mellitus QTL 44			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	49393289	199050459	Rat
724559	Pancm1	Pancreatic morphology QTL 1	7.1		islet of Langerhans morphology trait (VT:0005215)	pancreatic islet damage composite score (CMO:0001156)	1	181759564	214537555	Rat
2312420	Pur17	Proteinuria QTL 17	7.1	0.0001	urine protein amount (VT:0005160)	urine total protein excretion rate (CMO:0000756)	1	156677124	218753816	Rat
10059600	Bp378	Blood pressure QTL 378	3.08	0.05	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	176869060	221869060	Rat
1354591	Cm36	Cardiac mass QTL 36	4.1		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	102813953	201278233	Rat
2312558	Glom17	Glomerulus QTL 17	3.9	0.001	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	1	166532971	191278129	Rat
7421630	Bp362	Blood pressure QTL 362		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	118608292	241799120	Rat
619613	Bp77	Blood pressure QTL 77		0.01	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	164747424	209747424	Rat
10059597	Bp377	Blood pressure QTL 377	3.42	0.025	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	32737458	199368955	Rat
619614	Bp78	Blood pressure QTL 78		0.001	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	169112897	197261052	Rat
634321	Hc1	Hypercalciuria QTL 1	2.91		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	1	178810256	240830002	Rat
724562	Rends1	Renal damage susceptibility QTL 1		0.05	kidney glomerulus integrity trait (VT:0010546)	index of glomerular damage (CMO:0001135)	1	169537671	214537671	Rat
2292222	Bp307	Blood pressure QTL 307	3.06	0.0014	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	164310393	213533942	Rat
2292220	Bp306	Blood pressure QTL 306	3.47	0.00087	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	164310393	243914901	Rat
1354615	Cm32	Cardiac mass QTL 32	5.2		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	1	102813953	201278233	Rat
1600380	Niddm70	Non-insulin dependent diabetes mellitus QTL 70	3.1	0.0008	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	176550523	221550523	Rat
1354610	Bw34	Body weight QTL 34	4.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	256448636	Rat
1354620	Kidm19	Kidney mass QTL 19	4		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	151162512	201278233	Rat
1354618	Kidm15	Kidney mass QTL 15	5		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	1	156677124	201278233	Rat
6903303	Scl34	Serum cholesterol QTL 34	2.5	0.0033	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	1	180359209	218108781	Rat
152025212	Bw190	Body weight QTL 190	5.7		body mass (VT:0001259)		1	123556856	196963478	Rat
631549	Bp89	Blood pressure QTL 89	5.7		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	123350581	201284552	Rat
1358189	Cstrr1	Cold stress response QTL 1		0.0001	catecholamine amount (VT:0010543)	urine norepinephrine level (CMO:0001629)	1	123350408	182418476	Rat
2293083	Iddm25	Insulin dependent diabetes mellitus QTL 25	4.18		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	181829673	224569684	Rat
1354606	Bp246	Blood pressure QTL 246	3.6		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	102813953	218753816	Rat
738032	Hcas5	Hepatocarcinoma susceptibility QTL 5	3.12		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	176426412	257976495	Rat
2325725	Eae31	Experimental allergic encephalomyelitis QTL 31			nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	1	178810256	188377506	Rat
1354602	Bw35	Body weight QTL 35	12.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	201278233	Rat
631670	Iddm10	Insulin dependent diabetes mellitus QTL 10	1.9		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	1	174133260	196383668	Rat

Markers in Region

BF403369

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	182,217,269 - 182,217,427 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	199,052,201 - 199,052,358	NCBI	Rnor6.0
Rnor_5.0	1	206,074,848 - 206,075,005	UniSTS	Rnor5.0
RGSC_v3.4	1	186,890,760 - 186,890,917	UniSTS	RGSC3.4
Celera	1	179,869,079 - 179,869,236	UniSTS
Cytogenetic Map	1	q36	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	11	49	113	91	90	59	25	59	6	218	97	93	45	60	31

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_153471	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006230219	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102438	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039102448	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063282419	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC120262	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF352815	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473956	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000025499 ⟹ ENSRNOP00000025500

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	182,202,615 - 182,217,241 (+)	Ensembl
Rnor_6.0 Ensembl	1	199,037,544 - 199,052,172 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000097364 ⟹ ENSRNOP00000079727

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	182,202,615 - 182,217,241 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000098677 ⟹ ENSRNOP00000094962

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	182,202,615 - 182,217,241 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000112181 ⟹ ENSRNOP00000080878

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	182,202,600 - 182,217,241 (+)	Ensembl

RefSeq Acc Id:

NM_153471 ⟹ NP_703201

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	191,633,106 - 191,647,734 (+)	NCBI
mRatBN7.2	1	182,202,615 - 182,217,241 (+)	NCBI
Rnor_6.0	1	199,037,544 - 199,052,172 (+)	NCBI
Rnor_5.0	1	206,060,115 - 206,075,465 (+)	NCBI
RGSC_v3.4	1	186,876,103 - 186,890,731 (+)	RGD
Celera	1	179,854,408 - 179,869,050 (+)	RGD

Sequence:

show sequence

GGCGCTTGGCTGACCCTACCGTGACGGAAGTGCCGCCTCCGCCCGCCTGACAGCCCCGGAGAGC
TCTGAGCTGTCCCTCCGCCACCGCCGCTATGTCTGGCCTCAGCAACAAGCGCGCCGCCGGCGAC
GGGGGCTCAGGACCCCCAGAGAAGAAGCTGAACCGCGAGGAGAAGACTACGACCACTCTAATCG
AGCCCATTCGTCTCGGGGGCATTTCTTCCACGGAGGAGATGGATTCCAAGGTGCTGCAGTTTAA
GAATAAGAAGCTGGCGGAGCGGCTGGAGCAGCGGCAAGCCTGTGAGGACGAGCTCCGGGAGAGA
ATTGAGAAATTGGAGAAGAGGCAGGCCACGGACGATGCCACACTCCTCATCGTCAACCGCTACT
GGGCCCAGCTGGATGAAACTGTAGAAGCCCTTCTCCAGTGCTACGAGAACCAGAGGGAGCTGTC
TTCATCAGGGACAGAGGTGCCTGGGTGCCAAGAGGGCCTAACCCGTGATGTGATCCCTCGAACA
GATCCAGGGACATCAGATCTGAGGGAACCACTGCCGATGCAGTTCCGAGCCCCTCTCAGTGAGC
CAGCCTTGGCTTTTGTGGTGGCACTGGGCGCCAGCAGCTGTGAGGAAGTAGAGCTGCAGCTGCA
GGGTCGCATGGAATTCTCCAAGGCTGCTGTGTCTCGGGTGGTAGAGGCCTCGGACCGCCTACAG
CGTCAGGTGGAAGAACTCTGTCAGCGAGTATACAGCCGGGGGGACAGTGAGGCGCCCGGGGAGG
TGGCACGGGCACGCACCCGGGAACTAGGCAGAGAGAACCGTAGGCTACAGGACTTGGCCACTCA
GCTGCAGGAGAAGCACCACCGCATCTCGTTGGAGTACTCTGAGCTCCAAGACAAAGTGACATCG
ACGGAGACCAAGGTCCTAGAGATGGAGACAACAGTGGAGGACTTACAGTGGGACATCGAGAAGC
TGCGCAAGCGAGAACAGAAGCTCAATAAGCACTTGGCAGAGGCCTTGGAGCAGCTCAACTCTGG
CTACTATGTGTCTGGGAGCTCCACGGGCTTTCAGGGAGGCCAGATTACACTTAGCATGCAGAAG
TTTGAGATGTTGAATGCAGAGCTGGAAGAAAATCAGGAATTGGCCAATAGCCGAATGGCAGAGC
TCGAGAAGTTACAGGCTGAGCTTCAGGGGGCTGTTCGGACCAATGAACGTCTCAAGGTGGCCCT
GCGAAGCCTTCCTGAGGAGGTCGTTCGTGAGACGGGGGAGTACCGCATGCTGCAGGCCCAGTTC
TCACTGCTCTACAATGAGTCTTTGCAAGTGAAGACCCAGCTAGATGAGGCCCGGGGACTGCTGC
TGGCCTCCAAGAACTCCCACTTGAGACACATCGAACATATGGAGAGCGATGAGTTGGGGCTGCA
GAAGAAGCTGCGCACAGAAGTTATCCAGCTGGAAGACACCCTGGCCCAGGTACGCAAGGAGTAC
GAGATGCTGCGCATTGAGTTTGAGCAGAACCTTGCGGCCAACGAGCAGGCTGGGCCTATCAACC
GTGAAATGCGCCACCTGATTAGCAGCCTCCAGAACCACAATCACCAGCTAAAAGGAGATGCCCA
GCGATATAAGCGGAAACTTCGAGAAGTACAGGCTGAGATTGGTAAACTCCGGGCACAGGCCAGC
GGCTCTTCCCACTGCGGCCCCAACTTGAGCCACCCTGATGACTCTGGCCTCAATGCCCTTGCCC
CAGGGAAAGAAGATAGTGGGCCTGGCCCTGGAGGCACCCCTGACAGCAAGAAGGAGTTGGCTTT
AGTGGCGGGAGCTACGTCTGTTGCTTCTTCCGTAAAGAAAGAGGAGCTGGTCTCCTCCGAAGAT
GATGCCCAGGCCCTAGCCCCTGGAACCCAGGGCTTGCCCTCCCGGGGCCGAGAACCTGAGGCCA
GACCCAAGCGAGAACTTCGGGAACGGGAAGGGCCTAGCCTGGGACCCCCACCTGCAGCCTCCAC
TCTGTCCAGGGCTGATCGAGAAAAGGCCAAGGCAGAGGAAGCCAGGAGGAAGGAATCAGAACTG
CTCAAAGGTCTCCGAGCAGAGCTCAAGAAGGCCCAGGAAAGCCAGAAGGAGATGAAGCTGCTGC
TGGACATGTACAAGTCCGCACCCAAGGAGCAGCGGGATAAGGTGCAACTCATGGCAGCTGAACG
GAAGGCCAAGGCCGAGGTGGATGAGCTTCGGAGCCGCATCCGAGACCTGGAAGAGAGAGACCGA
AGAGAAAGCAAGAAGATTGCCGATGAGGATGCCCTGCGGCGGATCCGGCAGGCAGAAGAGCAGA
TTGAACACTTGCAACGCAAATTGGGTGCGACCAAGCAGGAGGAAGAGGCACTGCTGTCGGAGAT
GGATGTGACAGGTCAAGCCTTTGAAGACATGCAGGAGCAAAACGGGCGGCTGCTCCAGCAGTTA
CGGGAAAAGGATGACGCCAACTTTAAGCTCATGTCAGAGAGGATCAAGGCCAACCAGATTCACA
AGCTGCTCCGAGAAGAGAAGGACGAGTTGGGCGAGCAGGTTCTTGGCCTTAAGTCCCAGGTGGA
TGCCCAGCTGTTGACAGTCCAGAAGCTTGAGGAAAAGGAGCGGGCTCTGCAGGGCAGCCTTGGG
GGTGTCGAGAAGGAGTTGACATTGCGCAGCCAGGCCCTGGAGCTTAATAAGAGAAAGGCTGTAG
AAGCAGCCCAGTTGGCTGAGGACCTGAAGGTGCAGTTGGAGCACGTGCAGACTCGGCTTCGAGA
GATCCAGCCCTGCCTGGCAGAGAGCCGGGCTGCCCGGGAGAAAGAGAGCTTCAACCTCAAGAGA
GCTCAGGAGGACATTTCCCGGCTGCGGCGCAAACTAGAGAAACAGCGGAAAGTAGAAGTTTATG
CAGATGCGGATGAGATCCTGCAGGAAGAGATCAAGGAGTACAAGGCCCGGCTGACCTGCCCCTG
CTGTAACACCCGCAAGAAGGACGCTGTGCTTACCAAGTGCTTCCACGTCTTCTGCTTTGAATGC
GTGCGGGGCCGCTATGAGGCCCGCCAGAGGAAGTGTCCCAAGTGCAACGCTGCCTTTGGTGCCC
ACGACTTCCACCGTGTGTACATCAGCTGAACCTGAAACTCAGGGGACTTTGAAACATCCATATA
CCCTAGGGGCTGTGCCCCCAGCTCCCCACTCCCCCGGGGGCAATGGCCCCAACCTCCCTTCCAG
ACTCCATGAGCCCAGCCCCTCTATGCCGAGATGGTTTGGGGCCACTGGTGCATGCAGGAGAGGT
GGGACTAACCGAGCTGAGTGCCATCTCCTGAATGTCACATCTGCAGCCTCTGGGACTCCCGGGT
TCACAACATCCCACTGTAACCTCGGGAGCTGGCCAGACCTGTTTCTACTGAGAAGGCAGATACA
TCCTTGCCCCTAAAGGGGATCCCTCCACC

hide sequence

RefSeq Acc Id:

XM_006230219 ⟹ XP_006230281

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	191,632,992 - 191,649,231 (+)	NCBI
mRatBN7.2	1	182,202,475 - 182,217,899 (+)	NCBI
Rnor_6.0	1	199,037,472 - 199,052,823 (+)	NCBI
Rnor_5.0	1	206,060,115 - 206,075,465 (+)	NCBI

Sequence:

show sequence

ACATCCGGAGCCGCTCTGACGCCTGCGCTGTGCGTCTGGCGGCCGGTGACGTCGAGTGAAATCC
AAGATGGTGGCGCTTGGCTGACCCTACCGTGACGGAAGTGCCGCCTCCGCCCGCCTGACAGCCC
CGGAGAGCTCTGAGCTGTCCCTCCGCCACCGCCGCTATGTCTGGCCTCAGCAACAAGCGCGCCG
CCGGCGACGGGGGCTCAGGACCCCCAGAGAAGAAGCTGAACCGCGAGGAGAAGACTACGACCAC
TCTAATCGAGCCCATTCGTCTCGGGGGCATTTCTTCCACGGAGGAGATGGATTCCAAGGTGCTG
CAGTTTAAGAATAAGAAGCTGGCGGAGCGGCTGGAGCAGCGGCAAGCCTGTGAGGACGAGCTCC
GGGAGAGAATTGAGAAATTGGAGAAGAGGCAGGCCACGGACGATGCCACACTCCTCATCGTCAA
CCGCTACTGGGCCCAGCTGGATGAAACTGTAGAAGCCCTTCTCCAGTGCTACGAGAACCAGAGG
GAGCTGTCTTCATCAGGGACAGAGGTGCCTGGGTGCCAAGAGGGCCTAACCCGTGATGTGATCC
CTCGAACAGATCCAGGGACATCAGATCTGAGGGAACCACTGCCGATGCAGTTCCGAGCCCCTCT
CAGTGAGCCAGCCTTGGCTTTTGTGGTGGCACTGGGCGCCAGCAGCTGTGAGGAAGTAGAGCTG
CAGCTGCAGGGTCGCATGGAATTCTCCAAGGCTGCTGTGTCTCGGGTGGTAGAGGCCTCGGACC
GCCTACAGCGTCAGGTGGAAGAACTCTGTCAGCGAGTATACAGCCGGGGCTCTGCATTCTCAGG
GGACAGTGAGGCGCCCGGGGAGGTGGCACGGGCACGCACCCGGGAACTAGGCAGAGAGAACCGT
AGGCTACAGGACTTGGCCACTCAGCTGCAGGAGAAGCACCACCGCATCTCGTTGGAGTACTCTG
AGCTCCAAGACAAAGTGACATCGACGGAGACCAAGGTCCTAGAGATGGAGACAACAGTGGAGGA
CTTACAGTGGGACATCGAGAAGCTGCGCAAGCGAGAACAGAAGCTCAATAAGCACTTGGCAGAG
GCCTTGGAGCAGCTCAACTCTGGCTACTATGTGTCTGGGAGCTCCACGGGCTTTCAGGGAGGCC
AGATTACACTTAGCATGCAGAAGTTTGAGATGTTGAATGCAGAGCTGGAAGAAAATCAGGAATT
GGCCAATAGCCGAATGGCAGAGCTCGAGAAGCTACAGGCTGAGCTTCAGGGGGCTGTTCGGACC
AATGAACGTCTCAAGGTGGCCCTGCGAAGCCTTCCTGAGGAGGTCGTTCGTGAGACGGGGGAGT
ACCGCATGCTGCAGGCCCAGTTCTCACTGCTCTACAATGAGTCTTTGCAAGTGAAGACCCAGCT
AGATGAGGCCCGGGGACTGCTGCTGGCCTCCAAGAACTCCCACTTGAGACACATCGAACATATG
GAGAGCGATGAGTTGGGGCTGCAGAAGAAGCTGCGCACAGAAGTTATCCAGCTGGAAGACACCC
TGGCCCAGGTACGCAAGGAGTACGAGATGCTGCGCATTGAGTTTGAGCAGAACCTTGCGGCCAA
CGAGCAGGCTGGGCCTATCAACCGTGAAATGCGCCACCTGATTAGCAGCCTCCAGAACCACAAT
CACCAGCTAAAAGGAGATGCCCAGCGATATAAGCGGAAACTTCGAGAAGTACAGGCTGAGATTG
GTAAACTCCGGGCACAGGCCAGCGGCTCTTCCCACTGCGGCCCCAACTTGAGCCACCCTGATGA
CTCTGGCCTCAATGCCCTTGCCCCAGGGAAAGAAGATAGTGGGCCTGGCCCTGGAGGCACCCCT
GACAGCAAGAAGGAGTTGGCTTTAGTGGCGGGAGCTACGTCTGTTGCTTCTTCCGTAAAGAAAG
AGGAGCTGGTCTCCTCCGAAGATGATGCCCAGGCCCTAGCCCCTGGAACCCAGGGCTTGCCCTC
CCGGGGCCGAGAACCTGAGGCCAGACCCAAGCGAGAACTTCGGGAACGGGAAGGGCCTAGCCTG
GGACCCCCACCTGCAGCCTCCACTCTGTCCAGGGCTGATCGAGAAAAGGCCAAGGCAGAGGAAG
CCAGGAGGAAGGAATCAGAACTGCTCAAAGGTCTCCGAGCAGAGCTCAAGAAGGCCCAGGAAAG
CCAGAAGGAGATGAAGCTGCTGCTGGACATGTACAAGTCCGCACCCAAGGAGCAGCGGGATAAG
GTGCAACTCATGGCAGCTGAACGGAAGGCCAAGGCCGAGGTGGATGAGCTTCGGAGCCGCATCC
GAGACCTGGAAGAGAGAGACCGAAGAGAAAGCAAGAAGATTGCCGATGAGGATGCCCTGCGGCG
GATCCGGCAGGCAGAAGAGCAGATTGAACACTTGCAACGCAAATTGGGTGCGACCAAGCAGGAG
GAAGAGGCACTGCTGTCGGAGATGGATGTGACAGGTCAAGCCTTTGAAGACATGCAGGAGCAAA
ACGGGCGGCTGCTCCAGCAGTTACGGGAAAAGGATGACGCCAACTTTAAGCTCATGTCAGAGAG
GATCAAGGCCAACCAGATTCACAAGCTGCTCCGAGAAGAGAAGGACGAGTTGGGCGAGCAGGTT
CTTGGCCTTAAGTCCCAGGTGGATGCCCAGCTGTTGACAGTCCAGAAGCTTGAGGAAAAGGAGC
GGGCTCTGCAGGGCAGCCTTGGGGGTGTCGAGAAGGAGTTGACATTGCGCAGCCAGGCCCTGGA
GCTTAATAAGAGAAAGGCTGTAGAAGCAGCCCAGTTGGCTGAGGACCTGAAGGTGCAGTTGGAG
CACGTGCAGACTCGGCTTCGAGAGATCCAGCCCTGCCTGGCAGAGAGCCGGGCTGCCCGGGAGA
AAGAGAGCTTCAACCTCAAGAGAGCTCAGGAGGACATTTCCCGGCTGCGGCGCAAACTAGAGAA
ACAGCGGAAAGTAGAAGTTTATGCAGATGCGGATGAGATCCTGCAGGAGGAGATCAAGGAGTAC
AAGGCCCGGCTGACCTGCCCCTGCTGTAACACCCGCAAGAAGGACGCTGTGCTTACCAAGTGCT
TCCACGTCTTCTGCTTTGAATGTGTGCGGGGCCGCTATGAGGCCCGCCAGAGGAAGTGTCCCAA
GTGCAACGCTGCCTTTGGTGCCCACGACTTCCACCGTGTGTACATCAGCTGAACCTGAAACTCA
GGGGACTTTGAAACATCCATATACCCTAGGGGCTGTGCCCCCAGCTCCCCACTCCCCCGGGGGC
AATGGCCCCAACCTCCCTTCCAGACTCCATGAGCCCAGCCCCTCTATGCCGAGATGGTTTGGGG
CCACTGGTGCATGCAGGAGAGGTGGGACTAACCGAGCTGAGTGCCATCTCCTGAATGTCACATC
TGCAGCCTCTGGGACTCCCGGGTTCACAACATCCCACTGTAACCTCGGGAGCTGGCCAGACCTG
TTTCTACTGAGAAGGCAGATACATCCTTGCCCCTAAAGGGGATCCCTCCACCAGGAGAGGGCTC
ACCACAAGCCTGCACAAGCTCAGTAGTGACCAGGGACCACTTGCGTGGCATTGGGTCCTGACCC
AGGGAGCCTTTCTTCACCTCCTCAGCCCTCGGCCTGGCAGGGATTTAGCCTTCCAGTGGAGTTT
GCTGTACCCTTGTGTAGCTTTTGTGTTAAGAAGGTGCACTCCTGGGTGTCTGCCCTCTTCAGGG
ACACTCTGCAGTTACGGACACTGCCTGCTCATAGTCTGATTCAGGGTCATCAATTTTTTTTTTT
TTTTTTTTTTAGCCAGACACTTTCCAATCTCCTGCTTTTCTCCTAAGCCCACTTTACCCTTCCT
CACACATCCTGATGGTCCCTTGAGTACCTGGCCCTAGCCCTGCTTTCTTTCATCCTGGTGGTCT
TAATTGTGGAGGTGCAACTTACCAGGAGGGAAGAGACAATCTAGCACTTCCAGTCATTCCAGGT
AGAAGAGCTTGGCCTGTCCTCCAGCTAGCCTGCACTGGTACTCCTGAACACTAGAGACAGGACC
TAGTGGAGCTGGGAGATGGCGCTGCAGATAGCTACAGGATCTTTTGGACTCACAGCCTCTGCTC
TAGAGGCGTCGTGTATGGGCTGCTAATTGTTATGAATAAATACCCAACCCTAGGCTGAGAGAA

hide sequence

RefSeq Acc Id:

XM_039102438 ⟹ XP_038958366

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	191,632,990 - 191,645,065 (+)	NCBI
mRatBN7.2	1	182,202,475 - 182,214,572 (+)	NCBI

RefSeq Acc Id:

XM_039102448 ⟹ XP_038958376

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	191,635,943 - 191,649,231 (+)	NCBI
mRatBN7.2	1	182,205,447 - 182,217,899 (+)	NCBI

RefSeq Acc Id:

XM_063282419 ⟹ XP_063138489

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	191,632,988 - 191,641,257 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_703201	(Get FASTA)	NCBI Sequence Viewer
	XP_006230281	(Get FASTA)	NCBI Sequence Viewer
	XP_038958366	(Get FASTA)	NCBI Sequence Viewer
	XP_038958376	(Get FASTA)	NCBI Sequence Viewer
	XP_063138489	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAN16401	(Get FASTA)	NCBI Sequence Viewer
	EDM17256	(Get FASTA)	NCBI Sequence Viewer
	EDM17257	(Get FASTA)	NCBI Sequence Viewer
	EDM17258	(Get FASTA)	NCBI Sequence Viewer
	EDM17259	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000025500.2
	ENSRNOP00000079727.1
	ENSRNOP00000080878.1
	ENSRNOP00000094962.1
GenBank Protein	Q8CJB9	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_703201 ⟸ NM_153471

- UniProtKB:

Q8CJB9 (UniProtKB/Swiss-Prot), A6I9S3 (UniProtKB/TrEMBL), A6I9S2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSGLSNKRAAGDGGSGPPEKKLNREEKTTTTLIEPIRLGGISSTEEMDSKVLQFKNKKLAERLE
QRQACEDELRERIEKLEKRQATDDATLLIVNRYWAQLDETVEALLQCYENQRELSSSGTEVPGC
QEGLTRDVIPRTDPGTSDLREPLPMQFRAPLSEPALAFVVALGASSCEEVELQLQGRMEFSKAA
VSRVVEASDRLQRQVEELCQRVYSRGDSEAPGEVARARTRELGRENRRLQDLATQLQEKHHRIS
LEYSELQDKVTSTETKVLEMETTVEDLQWDIEKLRKREQKLNKHLAEALEQLNSGYYVSGSSTG
FQGGQITLSMQKFEMLNAELEENQELANSRMAELEKLQAELQGAVRTNERLKVALRSLPEEVVR
ETGEYRMLQAQFSLLYNESLQVKTQLDEARGLLLASKNSHLRHIEHMESDELGLQKKLRTEVIQ
LEDTLAQVRKEYEMLRIEFEQNLAANEQAGPINREMRHLISSLQNHNHQLKGDAQRYKRKLREV
QAEIGKLRAQASGSSHCGPNLSHPDDSGLNALAPGKEDSGPGPGGTPDSKKELALVAGATSVAS
SVKKEELVSSEDDAQALAPGTQGLPSRGREPEARPKRELREREGPSLGPPPAASTLSRADREKA
KAEEARRKESELLKGLRAELKKAQESQKEMKLLLDMYKSAPKEQRDKVQLMAAERKAKAEVDEL
RSRIRDLEERDRRESKKIADEDALRRIRQAEEQIEHLQRKLGATKQEEEALLSEMDVTGQAFED
MQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDELGEQVLGLKSQVDAQLLTVQKL
EEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQLAEDLKVQLEHVQTRLREIQPCLAESR
AAREKESFNLKRAQEDISRLRRKLEKQRKVEVYADADEILQEEIKEYKARLTCPCCNTRKKDAV
LTKCFHVFCFECVRGRYEARQRKCPKCNAAFGAHDFHRVYIS

hide sequence

RefSeq Acc Id:	XP_006230281 ⟸ XM_006230219
- Peptide Label:	isoform X1
- UniProtKB:	A0A8L2UK73 (UniProtKB/TrEMBL), A6I9S2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSGLSNKRAAGDGGSGPPEKKLNREEKTTTTLIEPIRLGGISSTEEMDSKVLQFKNKKLAERLE QRQACEDELRERIEKLEKRQATDDATLLIVNRYWAQLDETVEALLQCYENQRELSSSGTEVPGC QEGLTRDVIPRTDPGTSDLREPLPMQFRAPLSEPALAFVVALGASSCEEVELQLQGRMEFSKAA VSRVVEASDRLQRQVEELCQRVYSRGSAFSGDSEAPGEVARARTRELGRENRRLQDLATQLQEK HHRISLEYSELQDKVTSTETKVLEMETTVEDLQWDIEKLRKREQKLNKHLAEALEQLNSGYYVS GSSTGFQGGQITLSMQKFEMLNAELEENQELANSRMAELEKLQAELQGAVRTNERLKVALRSLP EEVVRETGEYRMLQAQFSLLYNESLQVKTQLDEARGLLLASKNSHLRHIEHMESDELGLQKKLR TEVIQLEDTLAQVRKEYEMLRIEFEQNLAANEQAGPINREMRHLISSLQNHNHQLKGDAQRYKR KLREVQAEIGKLRAQASGSSHCGPNLSHPDDSGLNALAPGKEDSGPGPGGTPDSKKELALVAGA TSVASSVKKEELVSSEDDAQALAPGTQGLPSRGREPEARPKRELREREGPSLGPPPAASTLSRA DREKAKAEEARRKESELLKGLRAELKKAQESQKEMKLLLDMYKSAPKEQRDKVQLMAAERKAKA EVDELRSRIRDLEERDRRESKKIADEDALRRIRQAEEQIEHLQRKLGATKQEEEALLSEMDVTG QAFEDMQEQNGRLLQQLREKDDANFKLMSERIKANQIHKLLREEKDELGEQVLGLKSQVDAQLL TVQKLEEKERALQGSLGGVEKELTLRSQALELNKRKAVEAAQLAEDLKVQLEHVQTRLREIQPC LAESRAAREKESFNLKRAQEDISRLRRKLEKQRKVEVYADADEILQEEIKEYKARLTCPCCNTR KKDAVLTKCFHVFCFECVRGRYEARQRKCPKCNAAFGAHDFHRVYIS hide sequence

Ensembl Acc Id:

ENSRNOP00000025500 ⟸ ENSRNOT00000025499

RefSeq Acc Id:	XP_038958366 ⟸ XM_039102438
- Peptide Label:	isoform X2
- UniProtKB:	A6I9S1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038958376 ⟸ XM_039102448
- Peptide Label:	isoform X4
- UniProtKB:	A6I9S4 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000079727 ⟸ ENSRNOT00000097364

Ensembl Acc Id:

ENSRNOP00000094962 ⟸ ENSRNOT00000098677

Ensembl Acc Id:

ENSRNOP00000080878 ⟸ ENSRNOT00000112181

RefSeq Acc Id:	XP_063138489 ⟸ XM_063282419
- Peptide Label:	isoform X3

Protein Domains

RING-type

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q8CJB9-F1-model_v2	AlphaFold	Q8CJB9	1-1002	view protein structure

Transcriptome

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

Promoters

RGD ID:

13690436

Promoter ID:

EPDNEW_R961

Type:

multiple initiation site

Name:

Rnf40_1

Description:

ring finger protein 40

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	1	199,037,525 - 199,037,585	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:628638	AgrOrtholog
BioCyc Gene	G2FUF-57350	BioCyc
Ensembl Genes	ENSRNOG00000018840	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000025499.3	UniProtKB/TrEMBL
	ENSRNOT00000097364.1	UniProtKB/TrEMBL
	ENSRNOT00000098677.1	UniProtKB/TrEMBL
	ENSRNOT00000112181.1	UniProtKB/TrEMBL
Gene3D-CATH	3.30.40.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro	E3_ubiquit_lig_Bre1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_C3HC4_RING-type	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_RING	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_RING/FYVE/PHD	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_RING_CS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:266712	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene	266712	ENTREZGENE
PANTHER	E3 UBIQUITIN-PROTEIN LIGASE BRE1B	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR23163	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	zf-C3HC4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Rnf40	PhenoGen
PROSITE	ZF_RING_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZF_RING_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000018840	RatGTEx
SMART	RING	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	RING/U-box	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8I6G5N6_RAT	UniProtKB/TrEMBL
	A0A8I6G786_RAT	UniProtKB/TrEMBL
	A0A8I6GLE2_RAT	UniProtKB/TrEMBL
	A0A8L2UK73	ENTREZGENE, UniProtKB/TrEMBL
	A6I9S1	ENTREZGENE, UniProtKB/TrEMBL
	A6I9S2	ENTREZGENE, UniProtKB/TrEMBL
	A6I9S3	ENTREZGENE, UniProtKB/TrEMBL
	A6I9S4	ENTREZGENE, UniProtKB/TrEMBL
	BRE1B_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-29	Rnf40	ring finger protein 40	Rnf40	ring finger protein 40, E3 ubiquitin protein ligase	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-10-15	Rnf40	ring finger protein 40, E3 ubiquitin protein ligase	Rnf40	ring finger protein 40	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-02-26	Rnf40	ring finger protein 40			Symbol and Name status set to approved	625702	APPROVED
2003-02-27	Rnf40	ring finger protein 40			Symbol and Name status set to provisional	70820	PROVISIONAL

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

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

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

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

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