Ddx10 (DEAD-box helicase 10) - Rat Genome Database

Name: Ddx10
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Ddx10 (DEAD-box helicase 10) Rattus norvegicus

Analyze

Symbol:

Ddx10

Name:

DEAD-box helicase 10

RGD ID:

1308990

Description:

Predicted to have ATP binding activity; RNA binding activity; and RNA helicase activity. Predicted to be involved in anterior head development. Orthologous to human DDX10 (DEAD-box helicase 10); PARTICIPATES IN ribosome biogenesis pathway; INTERACTS WITH (+)-schisandrin B; 2,2',4,4'-Tetrabromodiphenyl ether; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

DEAD (Asp-Glu-Ala-Asp) box polypeptide 10; LOC300710; probable ATP-dependent RNA helicase DDX10

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):	DDX10 (DEAD-box helicase 10)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Ddx10 (DEAD box helicase 10)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Ddx10 (DEAD-box helicase 10)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	DDX10 (DEAD-box helicase 10)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	DDX10 (DEAD-box helicase 10)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ddx10 (DEAD-box helicase 10)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	DDX10 (DEAD-box helicase 10)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	DDX10 (DEAD-box helicase 10)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ddx10 (DEAD-box helicase 10)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	DDX10 (DEAD-box helicase 10)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Ddx10 (DEAD box helicase 10)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	ddx10 (DEAD (Asp-Glu-Ala-Asp) box polypeptide 10)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	HCA4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	CG5800	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	Y23H5B.6	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	8	53,488,656 - 53,643,373 (-)	NCBI
Rnor_6.0 Ensembl	8	57,667,472 - 57,830,504 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	57,667,472 - 57,830,504 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	56,244,977 - 56,407,666 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	56,557,483 - 56,706,523 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	8	56,577,131 - 56,725,900 (-)	NCBI
Celera	8	52,980,229 - 53,134,442 (-)	NCBI		Celera
Cytogenetic Map	8	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(-)-epigallocatechin 3-gallate (ISO)

17beta-estradiol (ISO)

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

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

2-methylcholine (ISO)

3,4-methylenedioxymethamphetamine (ISO)

acrolein (ISO)

afimoxifene (ISO)

aflatoxin B1 (ISO)

aflatoxin B2 (ISO)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

arsane (ISO)

arsenic atom (ISO)

azathioprine (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP)

chromium(6+) (ISO)

cisplatin (ISO)

clofibric acid (EXP)

copper atom (ISO)

copper(0) (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

ethyl methanesulfonate (ISO)

flutamide (EXP)

folic acid (ISO)

hydrogen peroxide (ISO)

hypochlorous acid (ISO)

methamphetamine (EXP)

methotrexate (ISO)

methyl methanesulfonate (ISO)

oxaliplatin (EXP)

ozone (ISO)

paracetamol (ISO)

phenobarbital (ISO)

potassium chromate (ISO)

resveratrol (ISO)

silicon dioxide (ISO)

sodium aurothiomalate (ISO)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

thiophenes (ISO)

topotecan (EXP)

valproic acid (ISO)

zinc atom (ISO)

zinc(0) (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

anterior head development (ISO)

biological_process (ND)

rRNA processing (IBA)

Cellular Component

cellular_component (ND)

nucleus (IBA)

Molecular Function

ATP binding (IEA)

molecular_function (ND)

RNA binding (IEA)

RNA helicase activity (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

ribosome biogenesis pathway (ISO)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	GOA data from the GO Consortium
3.	Martin R, etal., RNA Biol. 2013 Jan;10(1):4-18. doi: 10.4161/rna.21879. Epub 2012 Aug 24.
4.	RGD automated data pipeline
5.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	RGD automated import pipeline for gene-chemical interactions
7.	RGD comprehensive gene curation

Additional References at PubMed

PMID:22658674	PMID:22681889	PMID:26234751

Genomics

Comparative Map Data

Ddx10
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	8	53,488,656 - 53,643,373 (-)	NCBI
Rnor_6.0 Ensembl	8	57,667,472 - 57,830,504 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	57,667,472 - 57,830,504 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	56,244,977 - 56,407,666 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	56,557,483 - 56,706,523 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	8	56,577,131 - 56,725,900 (-)	NCBI
Celera	8	52,980,229 - 53,134,442 (-)	NCBI		Celera
Cytogenetic Map	8	q24	NCBI

DDX10
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	11	108,665,069 - 108,940,927 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	11	108,665,069 - 108,940,927 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	11	108,535,796 - 108,811,654 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	11	108,041,026 - 108,316,860 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	11	108,041,025 - 108,316,856	NCBI
Celera	11	105,690,743 - 105,966,511 (+)	NCBI
Cytogenetic Map	11	q22.3	NCBI
HuRef	11	104,461,188 - 104,737,616 (+)	NCBI		HuRef
CHM1_1	11	108,418,718 - 108,694,643 (+)	NCBI		CHM1_1

Ddx10
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	53,009,754 - 53,159,423 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	9	53,009,935 - 53,159,353 (-)	Ensembl
GRCm38	9	53,098,454 - 53,248,170 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	53,098,635 - 53,248,053 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	52,906,559 - 53,056,217 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	9	52,860,849 - 53,018,778 (-)	NCBI			mm8
Celera	9	50,357,744 - 50,507,769 (-)	NCBI		Celera
Cytogenetic Map	9	A5.3	NCBI

Ddx10
(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_004955412	10,747,464 - 11,008,168 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955412	10,747,642 - 11,008,039 (+)	NCBI	ChiLan1.0	ChiLan1.0

DDX10
(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	11	107,018,678 - 107,293,755 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	11	107,018,798 - 107,293,248 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	11	103,549,629 - 103,826,262 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

DDX10
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	5	23,679,194 - 23,931,507 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	5	23,678,969 - 23,931,539 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Ddx10
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936551	51,514 - 127,429 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

DDX10
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	9	37,006,571 - 37,265,973 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	41,265,775 - 41,269,199 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

DDX10
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	1	100,089,094 - 100,369,032 (+)	NCBI
ChlSab1.1 Ensembl	1	100,089,153 - 100,357,309 (+)	Ensembl

Ddx10
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624784	3,331,137 - 3,715,356 (+)	NCBI

Position Markers

RH130022

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	8	57,667,585 - 57,667,787	NCBI	Rnor6.0
Rnor_5.0	8	56,245,090 - 56,245,292	UniSTS	Rnor5.0
RGSC_v3.4	8	56,557,596 - 56,557,798	UniSTS	RGSC3.4
Celera	8	52,980,342 - 52,980,544	UniSTS
RH 3.4 Map	8	582.5	UniSTS
Cytogenetic Map	8	q24	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1581557	Eae16	Experimental allergic encephalomyelitis QTL 16	3.8		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	8	9531047	119211942	Rat
631650	Stl6	Serum triglyceride level QTL 6	4	0.0019	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	8	10938911	120496129	Rat
1558646	Swd5	Spike wave discharge measurement QTL 5	3.45	0.00036	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge frequency (CMO:0001742)	8	17666555	62666555	Rat
61373	Mcs4	Mammary carcinoma susceptibility QTL 4	1.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	8	20717592	65717592	Rat
631271	Lecl1	Lens clarity QTL 1		0.001	lens clarity trait (VT:0001304)	age of onset/diagnosis of cataract (CMO:0001584)	8	21464919	91140553	Rat
731182	Uae24	Urinary albumin excretion QTL 24	6.4		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	8	21813070	100873963	Rat
631842	Inf1	Infertility severity QTL 1	4.1	0.001	seminal gland mass (VT:0010524)	seminal vesicle wet weight (CMO:0001603)	8	27841496	72841496	Rat
631648	Stl5	Serum triglyceride level QTL 5	4	0.0003	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	8	29867983	59908353	Rat
1358892	Kidm26	Kidney mass QTL 26	3.69		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	29867983	106526740	Rat
1358896	Bp262	Blood pressure QTL 262	2.89		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	29867983	106526740	Rat
1358907	Cm40	Cardiac mass QTL 40	1.89		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	29867983	106526740	Rat
2303564	Gluco43	Glucose level QTL 43	3		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	8	30144800	75144800	Rat
2303572	Insul13	Insulin level QTL 13	2		blood insulin amount (VT:0001560)	blood insulin level (CMO:0000349)	8	30144800	75144800	Rat
1331804	Cm30	Cardiac mass QTL 30	3.77443		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	8	30918112	58858224	Rat
1300146	Rf17	Renal function QTL 17	2.9		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	8	30918112	75918112	Rat
8662823	Vetf5	Vascular elastic tissue fragility QTL 5	1.9		artery integrity trait (VT:0010639)	patent ductus arteriosus score (CMO:0002566)	8	30918112	107206309	Rat
724514	Uae15	Urinary albumin excretion QTL 15	2.9		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	8	32201981	75971421	Rat
1549908	Neudeg1	Neurodegradation QTL 1	5.5	0	nervous system integrity trait (VT:0010566)	logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)	8	32888352	101374135	Rat
1331744	Bp217	Blood pressure QTL 217	3.398		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	33558660	62857995	Rat
61353	Bp35	Blood pressure QTL 35		0.001	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	8	33558660	65717592	Rat
61353	Bp35	Blood pressure QTL 35		0.001	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	8	33558660	65717592	Rat
61353	Bp35	Blood pressure QTL 35		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	33558660	65717592	Rat
61353	Bp35	Blood pressure QTL 35		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	33558660	65717592	Rat
1359033	Bp273	Blood pressure QTL 273			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	33558660	65717592	Rat
11556286	Cm81	Cardiac mass QTL 81		0.01	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	33558660	65717592	Rat
2313046	Bss78	Bone structure and strength QTL 78	3.5	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	8	33558660	89058369	Rat
2313057	Bss76	Bone structure and strength QTL 76	3	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	8	33558660	89058369	Rat
2313067	Bss77	Bone structure and strength QTL 77	3.1	0.0001	tibia size trait (VT:0100001)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	8	33558660	89058369	Rat
2313088	Bss75	Bone structure and strength QTL 75	3.1	0.0001	body length (VT:0001256)	body length, nose to rump (CMO:0000079)	8	33558660	89058369	Rat
1578765	Klgr1	Kidney lesion grade QTL 1	3.3	0.0001	kidney morphology trait (VT:0002135)	organ lesion measurement (CMO:0000677)	8	33558660	109028082	Rat
1578769	Uae31	Urinary albumin excretion QTL 31	3.3	0.001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	8	33558660	109028082	Rat
1578755	Pur5	Proteinuria QTL 5	3.3	0.0001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	8	33558660	109028082	Rat
2316950	Scl66	Serum cholesterol level QTL 66	4.1		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	8	33558764	113580387	Rat
1298065	Scl16	Serum cholesterol level QTL 16	3.8		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	8	35041414	80041414	Rat
1582222	Epfw2	Epididymal fat weight QTL 2	3.2	0.0005	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	8	35925594	80925594	Rat
1331838	Niddm61	Non-insulin dependent diabetes mellitus QTL 61	3.53	0.0004	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	8	39230130	106506973	Rat
61358	Bp39	Blood pressure QTL 39	2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	39927901	84927901	Rat
61464	Niddm11	Non-insulin dependent diabetes mellitus QTL 11	3.1	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	8	39958022	84958022	Rat
737824	Hcar10	Hepatocarcinoma resistance QTL 10	2.9		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	8	44219197	89542960	Rat
1358906	Bp253	Blood pressure QTL 253	4	0.0004	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	44219197	100873963	Rat
1554321	Bmd3	Bone mineral density QTL 3	7.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	44458129	118087517	Rat
1331769	Rf39	Renal function QTL 39	3.871		urine output (VT:0003620)	timed urine volume (CMO:0000260)	8	45712344	80003418	Rat
1298079	Activ2	Activity QTL 2	9.5	0.000001	voluntary movement trait (VT:0003491)	rearing measurement (CMO:0001515)	8	45712344	90712344	Rat
631216	Stl9	Serum triglyceride level QTL 9	4.71	0.0001	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	8	45712475	75971259	Rat
70161	Bp62	Blood pressure QTL 62	2.9	0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	46588437	96998640	Rat
12879882	Am8	Aortic mass QTL 8		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	8	47200750	106394378	Rat
12879878	Bw183	Body weight QTL 183		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	8	47200750	106394378	Rat
12879879	Cm99	Cardiac mass QTL 99		0.001	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	47200750	106394378	Rat
12879880	Cm100	Cardiac mass QTL 100		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	8	47200750	106394378	Rat
12879881	Cm101	Cardiac mass QTL 101		0.001	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	8	47200750	106394378	Rat
12879883	Kidm65	Kidney mass QTL 65		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	47200750	106394378	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	50529480	128036471	Rat
1331837	Bw23	Body weight QTL 23	4.19	0.00007	body mass (VT:0001259)	body weight (CMO:0000012)	8	50529563	106506973	Rat
2313086	Bss60	Bone structure and strength QTL 60	4.1	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	8	54065044	89058369	Rat
4889938	Bss89	Bone structure and strength QTL 89	3.8		tibia size trait (VT:0100001)	tibia cortical bone volume (CMO:0001725)	8	54065044	89058369	Rat
5684973	Bss100	Bone structure and strength QTL 100	4.7		tibia area (VT:1000281)	tibia area measurement (CMO:0001382)	8	54065044	89058369	Rat
1358912	Bw51	Body weight QTL 51	2.95		body mass (VT:0001259)	body weight (CMO:0000012)	8	55435004	115812386	Rat
2303570	Gluco48	Glucose level QTL 48	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	8	55659105	100659105	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	350
Count of miRNA genes:	206
Interacting mature miRNAs:	240
Transcripts:	ENSRNOT00000017683
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

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

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

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	2	24	42	26	19	26	1	1	74	27	37	11	1
Low	1	19	15	15		15	7	10		8	4		7
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001106820	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473975	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000198	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000017683 ⟹ ENSRNOP00000017683

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	8	57,667,472 - 57,830,504 (-)	Ensembl

RefSeq Acc Id:

NM_001106820 ⟹ NP_001100290

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	53,488,656 - 53,643,373 (-)	NCBI
Rnor_6.0	8	57,667,472 - 57,830,504 (-)	NCBI
Rnor_5.0	8	56,244,977 - 56,407,666 (-)	NCBI
RGSC_v3.4	8	56,557,483 - 56,706,523 (-)	RGD
Celera	8	52,980,229 - 53,134,442 (-)	RGD

Sequence:

show sequence

CTTGGGGGCGGGTCCCCGGCCTTGCGCGTGCGTCCCTGCACCCTCTCCACACGCTGGGTTTCGC
GTCTTCCTTGCTGCTCCTGAGGAGATAGGTGTCTCGTGTCTGGCGGCGTCGTGCGTCCTGGTAG
CCCCCGCCATGGGCAAAACGGTTGGTTCTCTGGGTCAGGGAACCCGACCGGACCCGGTGAGGAG
CTTCAACCGCTGGAAGAAAAAACACAGCCACAGGCAGCACCAAAAGAAGGAACGGAGGAAGCAG
CTTAAGAAGCCGGAATGGCAGGTCGAACGTGAGGGTATCAGCCGCCTCATGCAAAATTACGAGA
AGATAAATGTAAATGAAATTACAAGATTTTCAGATTTCCCTTTATCCAAAAAAACGTTGAAAGG
TTTGCAAGAAGCGCAATACCGCTTGGTAACAGAGATACAGAAGCAGACCATAGGGTTGGCTTTG
CAAGGTAAAGATGTGCTTGGAGCTGCCAAAACTGGGTCTGGCAAGACTTTGGCTTTTCTCGTTC
CAGTATTGGAAGCCTTATACCGCCTGCAGTGGACTTCAACAGACGGCCTGGGAGTTCTGATAAT
ATCACCTACTCGAGAACTGGCCTATCAGACATTTGAGGTTCTACGCAAAGTAGGAAAGAACCAT
GATTTTTCAGCTGGTCTCATCATTGGTGGGAAGGATCTAAAACATGAAGCTGAGAGGATCAACA
ACATAAATATACTCGTTTGCACACCAGGTCGACTTCTTCAACACATGGATGAAACAATCTGTTT
TCATGCCACCAATCTTCAGATGTTAGTTCTTGATGAGGCAGACAGAATCTTAGATATGGGCTTT
GCTGATACCATGAATGCTATCATTGAAAATCTTCCCAAGAAACGCCAGACTTTGCTGTTCTCAG
CTACACAGACCAAATCTGTGAAGGACCTTGCGCGCTTGAGTTTGAAAGACCCTGAGTATGTCTG
GGTTCATGAGAAAGCAAAATATAGCACCCCTGCTACATTGGAACAGAACTATATAATTTGTGAG
CTGCACCAAAAAATAAGTGTGCTGTTTTCATTTTTGAGAAGCCACCTAACGAAGAAGAGTATTG
TGTTTTTCTCCAGTTGCAAAGAGGTGCAGTATCTGTACAGGGTGTTCTGCCGGCTGCGCCCAGG
GATCTCTATCCTTGCTCTCCATGGCCGGCAGCAGCAGATGCGAAGAATGGAAGTCTACAATGAA
TTTGTCCGAAAGAGGGCTGCAGTCCTTTTTGCTACTGATATTGCAGCCAGGGGATTGGATTTTC
CAGCTGTGAATTGGGTCCTTCAGTTTGATTGTCCAGAGGATGCCAACACGTATATTCACAGAGC
TGGTAGAACTGCCAGGTACAAGGAGGACGGAGAAGCGTTATTAATTTTACTGCCCTCCGAAGAA
CAAGGCATGGTGCAGCAGCTTCTCCAGAAGAAAGTTCCTGTGAAGGAGATCAAAATCAATCCAG
AAAAACTTATCGATGTTCAGAAAAGATTAGAATCATTTTTAGCTCAAGATCAAGATTTAAAAGA
AAGAGCTCAAAGGTGTTTTGTCTCCTACATACGTTCAGTATATCTTATGAAGGATAAAGAAGTA
TTTGATGTGAACAAGTTACCTATTACTGAATATGCACTGTCTCTTGGTCTTGCTGTGGCACCAC
GGATAAGATTTCTTCAGAAAATGGAGAAACAGCCCAACAAAGAATTGGGAAAGAATCAAGTCAC
TGAAGCAATTCAGCCCAGGGCTCCCTCCCTCACCAGTGATGAAGTAGAAGAATTTCGAGCTTAT
TTCAGTGAGAAAATGTCCATCCTTCACAAAAGTGGGAAAAGACTAGAAGAGACAGAACACAGCT
TGGCTAGTGGTGAGAGTGAAGAACAGGATGAAGAGACGGAAGATGAAGAAATGGAAGATCATGT
GGGACAAACAAGAGAGCCTCCCACTGACTCTGTTCCCAGGAGTGAGGAGGCACAGAAGGTCAAG
GAAGTTCCTGTGCAGTTCTTAGACAGGGATGATGATGAGGAAGATGGGCCTGATGCTGACTTCC
TCACAGTGAAGCGGCGTGATGTGTTTGGGTTGGATCTTAAAGAGAATGAAGCACTGTCGAAAAA
GGAACCTTCTAAATCCAGTGTCAAGAAAAAATTAACCAAAGTTGCAGAAGCAAAAAAAGTAATG
AAGAGAAATTTTAAAGTGAACAAGAAAATAACATTTACGGATGAAGGAGAGTTGGTTCAGCAGT
GGCCACAGATTCAGAAATGTGCTACAAATGATGTGGAGGAAGAAGATGACACTGGTGGCATCAA
CCTAGACAAAGCCAAAGAAAGGCTTCAGGAAGAGGACAAATTTGACAAAGAAGAATATAGGAAG
AAAATTAAGGCAAAGCATCGGGAAAGACGCTTAAAAGAGAGAGAGGCCAGAAGAGAAGCCAACA
AAAGACAAGCAAAGGCCAGAGATGAAGAGGAAGCCTTTCTGGACTGGAGTGATGAAGATGATGG
TGGATTTGATCCAAGCACACTTCCAGATCCAGATAAGCACAGAAGTTCTGAAGAATCAGAGAGT
GAAGATACAAAACACAAGATGAGTGACACCAAGAAGAAGCAGGAAATGAGGAAGAGAAACAACA
CTGAAGTCGATGATGTAAGACCAAGAAGTCGTCATGGAAAGAAGGCCAAGTGGGAAACGTTAGA
ACCTTTGGATACAGGCCTGTCTTTAGCAGAGGACGAAGAGCTGGTGTTACATCTCCTCAAAAGT
CAAAACTAAGTGTTCTCTGTGCCTCTGTGCACCTCGATACCTCTGGACATTACTATGTGGGCAA
GAAGTTAAAAACAGCTTTGGGGCACTTAGGTACTGTGTGTCCTTTCTCCAACAGAAGTGACCAC
ATTCTAAGCTTTACAAGCTGAGTTTTGAAATATCGAGGAACATACTCAGAGTAAGAACATGTTG
TATACTCTGTTAGGATGTATGTGTAGGTTCATATTCCCCACCACTGGAAATGCTTGTCTTGTTT
GTTCCCACAGTGCTGAAGAGTGAACCAAGGCCGTGCATGTGGTAGATGAGTGCTCTCCTCCCGA
GCTGTGTACCTAGTCCGGCTTGTTTGTTTTACAGGCAAGGCTCTGAATCGTTGTTCATTTGCAA
ATACCTATATTCATACAGTACAAAAAATTTAATGTTACTCTTAAGTATACATAATTTTGTGTAT
ATTATCTCCAAAGAAACAGTATAATGGACTAGCCCTGACAAAGAATATTTTTTGCGTTCATAAA
AAATAAACATTTCTTATAAAGTACTATTGTTTTCATTGTGTCCAGTGATATGAAAAACTCAAAA
ATAGATTCATAAAATTAAATCATGACAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001100290	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL95511	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001100290 ⟸ NM_001106820

- UniProtKB:

D3ZBY5 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MGKTVGSLGQGTRPDPVRSFNRWKKKHSHRQHQKKERRKQLKKPEWQVEREGISRLMQNYEKIN
VNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVL
EALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERINNIN
ILVCTPGRLLQHMDETICFHATNLQMLVLDEADRILDMGFADTMNAIIENLPKKRQTLLFSATQ
TKSVKDLARLSLKDPEYVWVHEKAKYSTPATLEQNYIICELHQKISVLFSFLRSHLTKKSIVFF
SSCKEVQYLYRVFCRLRPGISILALHGRQQQMRRMEVYNEFVRKRAAVLFATDIAARGLDFPAV
NWVLQFDCPEDANTYIHRAGRTARYKEDGEALLILLPSEEQGMVQQLLQKKVPVKEIKINPEKL
IDVQKRLESFLAQDQDLKERAQRCFVSYIRSVYLMKDKEVFDVNKLPITEYALSLGLAVAPRIR
FLQKMEKQPNKELGKNQVTEAIQPRAPSLTSDEVEEFRAYFSEKMSILHKSGKRLEETEHSLAS
GESEEQDEETEDEEMEDHVGQTREPPTDSVPRSEEAQKVKEVPVQFLDRDDDEEDGPDADFLTV
KRRDVFGLDLKENEALSKKEPSKSSVKKKLTKVAEAKKVMKRNFKVNKKITFTDEGELVQQWPQ
IQKCATNDVEEEDDTGGINLDKAKERLQEEDKFDKEEYRKKIKAKHRERRLKEREARREANKRQ
AKARDEEEAFLDWSDEDDGGFDPSTLPDPDKHRSSEESESEDTKHKMSDTKKKQEMRKRNNTEV
DDVRPRSRHGKKAKWETLEPLDTGLSLAEDEELVLHLLKSQN

hide sequence

RefSeq Acc Id:

ENSRNOP00000017683 ⟸ ENSRNOT00000017683

Protein Domains

Helicase ATP-binding Helicase C-terminal Q_MOTIF

Transcriptome

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

Promoters

RGD ID:

13695967

Promoter ID:

EPDNEW_R6492

Type:

initiation region

Name:

Ddx10_1

Description:

DEAD-box helicase 10

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	8	57,830,456 - 57,830,516	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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

ACI/EurMcwi (RGD)

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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN/SsN (MCW)

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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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

F344/NCrl (RGD)

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

F344/NRrrc (MCW)

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

FHH/EurMcwi (MCW)

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

FHH/EurMcwi (RGD)

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

FHL/EurMcwi (MCW)

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

FHL/EurMcwi (RGD)

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

GH/OmrMcwi (MCW)

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

GK/Ox (RGD)

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

LE/Stm (RGD)

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

LEW/Crl (RGD)

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

LEW/NCrlBR (RGD)

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

LH/MavRrrc (RGD)

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

LL/MavRrrc (RGD)

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

LN/MavRrrc (RGD)

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

M520/N (MCW)

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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (MCW)

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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/NHsd (RGD)

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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WKY/Gcrc (RGD)

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

WKY/N (MCW)

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

WKY/NCrl (RGD)

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

WKY/NHsd (RGD)

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

WN/N (MCW)

Visual

CSV

TAB

Printer

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1308990	AgrOrtholog
Ensembl Genes	ENSRNOG00000012500	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000017683	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000017683	ENTREZGENE, UniProtKB/TrEMBL
InterPro	DEAD-like_N	UniProtKB/TrEMBL
	DNA/RNA_helicase_C	UniProtKB/TrEMBL
	DNA/RNA_helicase_DEAD/DEAH_N	UniProtKB/TrEMBL
	DUF4217	UniProtKB/TrEMBL
	P-loop_NTPase	UniProtKB/TrEMBL
	RNA-helicase_DEAD-box_CS	UniProtKB/TrEMBL
	RNA_helicase_DEAD_Q_motif	UniProtKB/TrEMBL
KEGG Report	rno:300710	UniProtKB/TrEMBL
NCBI Gene	300710	ENTREZGENE
Pfam	DEAD	UniProtKB/TrEMBL
	DUF4217	UniProtKB/TrEMBL
	Helicase_C	UniProtKB/TrEMBL
PhenoGen	Ddx10	PhenoGen
PROSITE	DEAD_ATP_HELICASE	UniProtKB/TrEMBL
	HELICASE_ATP_BIND_1	UniProtKB/TrEMBL
	HELICASE_CTER	UniProtKB/TrEMBL
	Q_MOTIF	UniProtKB/TrEMBL
SMART	DEXDc	UniProtKB/TrEMBL
	DUF4217	UniProtKB/TrEMBL
	HELICc	UniProtKB/TrEMBL
Superfamily-SCOP	SSF52540	UniProtKB/TrEMBL
UniProt	D3ZBY5	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-01-13	Ddx10	DEAD-box helicase 10	Ddx10	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Ddx10	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	Ddx10_predicted	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Ddx10_predicted	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10 (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)

RGD Manual Annotations