Ddx1 (DEAD-box helicase 1) - Rat Genome Database

Name: Ddx1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Ddx1 (DEAD-box helicase 1) Rattus norvegicus

Analyze

Symbol:

Ddx1

Name:

DEAD-box helicase 1

RGD ID:

619903

Description:

Predicted to enable several functions, including RNA binding activity; helicase activity; and transcription coregulator activity. Predicted to be involved in several processes, including nucleic acid metabolic process; positive regulation of canonical NF-kappaB signal transduction; and positive regulation of myeloid dendritic cell cytokine production. Predicted to act upstream of or within response to exogenous dsRNA and response to virus. Predicted to be located in several cellular components, including cleavage body; cytoplasmic stress granule; and mitochondrion. Predicted to be part of ribonucleoprotein complex and tRNA-splicing ligase complex. Orthologous to human DDX1 (DEAD-box helicase 1); INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 2,6-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

ATP-dependent RNA helicase DDX1; DEAD (Asp-Glu-Ala-Asp) box helicase 1; DEAD (Asp-Glu-Ala-Asp) box polypeptide 1; DEAD box protein 1; DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 1; DEAD/H-box helicase 1

RGD Orthologs

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):	DDX1 (DEAD-box helicase 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Ddx1 (DEAD box helicase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ddx1 (DEAD-box helicase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	DDX1 (DEAD-box helicase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	DDX1 (DEAD-box helicase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ddx1 (DEAD-box helicase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	DDX1 (DEAD-box helicase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	DDX1 (DEAD-box helicase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ddx1 (DEAD-box helicase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	DDX1 (DEAD-box helicase 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ddx1 (DEAD box helicase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ddx1 (DEAD (Asp-Glu-Ala-Asp) box helicase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Ddx1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	Y55F3BR.1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ddx1	Alliance	DIOPT (Ensembl Compara\|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
mRatBN7.2	6	35,996,469 - 36,027,340 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	35,996,469 - 36,027,365 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	36,308,721 - 36,339,592 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	36,623,377 - 36,654,248 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	36,091,437 - 36,122,515 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	38,422,892 - 38,453,762 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	38,422,888 - 38,453,797 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	47,188,697 - 47,219,567 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	36,794,602 - 36,825,473 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	36,812,356 - 36,818,005 (-)	NCBI
Celera	6	35,359,044 - 35,389,916 (-)	NCBI		Celera
Cytogenetic Map	6	q15	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

amenorrhea (ISO)

endometrial hyperplasia (ISO)

genetic disease (ISO)

human immunodeficiency virus infectious disease (ISO)

optic atrophy (ISO)

schizophrenia (ISO)

substance-related disorder (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2-dimethylhydrazine (ISO)

1-chloro-2,4-dinitrobenzene (ISO)

17alpha-ethynylestradiol (ISO)

17beta-hydroxy-17-methylestra-4,9,11-trien-3-one (ISO)

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

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

2,4-dibromophenyl 2,4,5-tribromophenyl ether (ISO)

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

2-amino-14,16-dimethyloctadecan-3-ol (ISO)

2-hydroxypropanoic acid (ISO)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

antirheumatic drug (ISO)

Aroclor 1254 (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

Bisphenol B (ISO)

bisphenol F (ISO)

buspirone (EXP)

C60 fullerene (EXP)

cadmium sulfate (ISO)

chlorpyrifos (ISO)

diarsenic trioxide (ISO)

dicrotophos (ISO)

enzyme inhibitor (ISO)

ethanol (ISO)

finasteride (EXP)

flutamide (EXP)

fumonisin B1 (ISO)

gallic acid (ISO)

gentamycin (EXP)

hydrogen peroxide (ISO)

ibuprofen (ISO)

isoflavones (EXP)

ivermectin (ISO)

lead(0) (ISO)

menadione (ISO)

methidathion (ISO)

methimazole (EXP)

N-methyl-4-phenylpyridinium (ISO)

okadaic acid (ISO)

oxaliplatin (EXP)

paracetamol (EXP,ISO)

pentachlorophenol (ISO)

pirinixic acid (ISO)

propiconazole (ISO)

rac-lactic acid (ISO)

resveratrol (ISO)

rotenone (EXP)

sodium arsenite (EXP)

sulfadimethoxine (EXP)

sulindac (EXP)

tetrachloromethane (EXP,ISO)

topotecan (EXP)

trimellitic anhydride (ISO)

troglitazone (ISO)

trovafloxacin (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

defense response to virus (IEA)

DNA duplex unwinding (ISO,ISS)

double-strand break repair (ISO,ISS)

innate immune response (IEA)

mRNA processing (IEA)

nucleic acid phosphodiester bond hydrolysis (ISO)

positive regulation of canonical NF-kappaB signal transduction (ISO,ISS)

positive regulation of myeloid dendritic cell cytokine production (ISO)

protein localization to cytoplasmic stress granule (ISO)

regulation of DNA-templated transcription (IEA)

response to exogenous dsRNA (ISO)

response to virus (ISO)

tRNA splicing, via endonucleolytic cleavage and ligation (ISO,ISS)

Cellular Component

cleavage body (ISO,ISS)

cytoplasm (ISO,ISS)

cytoplasmic stress granule (ISO,ISS)

cytosol (ISO,ISS)

mitochondrion (ISO,ISS)

nucleoplasm (ISO)

nucleus (ISO,ISS)

ribonucleoprotein complex (ISO)

tRNA-splicing ligase complex (ISO,ISS)

Molecular Function

ATP binding (IEA)

ATP hydrolysis activity (IEA)

chromatin binding (ISO,ISS)

DNA binding (IEA)

DNA/RNA helicase activity (ISO,ISS)

double-stranded RNA binding (ISO)

exonuclease activity (IEA)

nuclease activity (ISO,ISS)

poly(A) binding (ISO,ISS)

protein binding (ISO)

RNA helicase activity (ISO,ISS)

transcription coregulator activity (ISO,ISS)

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.	Amplification of Mycn, Ddx1, Rrm2, and Odc1 in rat uterine endometrial carcinomas.	Karlsson A, etal., Genes Chromosomes Cancer 2001 Aug;31(4):345-56.
4.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	GOA pipeline	RGD automated data pipeline
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:7689221	PMID:11598190	PMID:12183465	PMID:12477932	PMID:15489334	PMID:18335541	PMID:18710941	PMID:18809582	PMID:19058135	PMID:19946888	PMID:21311021	PMID:21703541
PMID:21933836	PMID:22658674	PMID:22681889	PMID:24608264	PMID:24870230	PMID:24965446	PMID:28259758	PMID:28755400	PMID:30295850

Genomics

Comparative Map Data

Ddx1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	6	35,996,469 - 36,027,340 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	35,996,469 - 36,027,365 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	36,308,721 - 36,339,592 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	36,623,377 - 36,654,248 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	36,091,437 - 36,122,515 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	38,422,892 - 38,453,762 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	38,422,888 - 38,453,797 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	47,188,697 - 47,219,567 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	36,794,602 - 36,825,473 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	36,812,356 - 36,818,005 (-)	NCBI
Celera	6	35,359,044 - 35,389,916 (-)	NCBI		Celera
Cytogenetic Map	6	q15	NCBI

DDX1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	15,591,868 - 15,631,101 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	15,591,178 - 15,634,346 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	15,731,992 - 15,771,225 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	15,649,221 - 15,688,676 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	15,682,367 - 15,721,823	NCBI
Celera	2	15,649,490 - 15,688,945 (+)	NCBI		Celera
Cytogenetic Map	2	p24.3	NCBI
HuRef	2	15,583,004 - 15,622,496 (+)	NCBI		HuRef
CHM1_1	2	15,661,598 - 15,701,093 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	15,623,489 - 15,662,692 (+)	NCBI		T2T-CHM13v2.0

Ddx1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	13,269,308 - 13,299,175 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	13,266,974 - 13,299,214 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	13,219,307 - 13,249,174 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	13,216,973 - 13,249,213 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	13,226,113 - 13,255,980 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	13,245,295 - 13,275,162 (-)	NCBI		MGSCv36	mm8
Celera	12	13,565,291 - 13,593,111 (-)	NCBI		Celera
Cytogenetic Map	12	A1.1	NCBI
cM Map	12	6.4	NCBI

Ddx1
(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_004955487	9,085,918 - 9,119,979 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955487	9,085,950 - 9,117,599 (+)	NCBI	ChiLan1.0	ChiLan1.0

DDX1
(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	2A	110,894,450 - 110,959,990 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	15,582,499 - 15,619,751 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	15,716,044 - 15,753,482 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	15,716,044 - 15,753,623 (+)	Ensembl	panpan1.1		panPan2

DDX1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	11,432,060 - 11,467,000 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	11,432,136 - 11,466,990 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	11,375,128 - 11,409,962 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	11,559,789 - 11,594,731 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	11,559,798 - 11,594,727 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	11,419,496 - 11,454,379 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	11,429,814 - 11,464,805 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	11,454,120 - 11,488,966 (+)	NCBI		UU_Cfam_GSD_1.0

Ddx1
(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_024406292	55,920,933 - 55,954,651 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936493	14,884,442 - 14,918,823 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936493	14,884,532 - 14,918,621 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

DDX1
(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	121,818,406 - 121,856,604 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	121,818,400 - 121,856,667 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	130,448,196 - 130,480,756 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

DDX1
(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	14	92,007,446 - 92,045,414 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	92,007,036 - 92,045,190 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666045	20,189,540 - 20,227,199 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ddx1
(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_004624865	898,850 - 928,091 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624865	898,850 - 927,375 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Ddx1
121 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	21
Count of miRNA genes:	21
Interacting mature miRNAs:	21
Transcripts:	ENSRNOT00000009100
Prediction methods:	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.

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
1578758	Tcas9	Tongue tumor susceptibility QTL 9	3.29		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	6	1	37618905	Rat
1598843	Cm63	Cardiac mass QTL 63	2.6		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	6	1	39036266	Rat
7411603	Foco13	Food consumption QTL 13	5.5	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	6	1	41223769	Rat
8552962	Pigfal16	Plasma insulin-like growth factor 1 level QTL 16	9.4		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	6	1	41223769	Rat
7411542	Bw127	Body weight QTL 127	5.5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	6	1	41223769	Rat
9589129	Insul24	Insulin level QTL 24	19.06	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	6	1	41223769	Rat
9589048	Scfw3	Subcutaneous fat weight QTL 3	4.57	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	6	1	41223769	Rat
2293709	Bss23	Bone structure and strength QTL 23	5.18	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	6	1	42487980	Rat
2293650	Bss31	Bone structure and strength QTL 31	5.05	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	6	1	42487980	Rat
2293656	Bss28	Bone structure and strength QTL 28	6.79	0.0001	femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	6	1	42487980	Rat
7411584	Foco4	Food consumption QTL 4	4.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	6	1	42838846	Rat
738024	Sach5	Saccharine consumption QTL 5	3.9	0.00039	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	6	1	43394190	Rat
2301972	Bp325	Blood pressure QTL 325	4.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	6	1	72227641	Rat
1300164	Rf15	Renal function QTL 15	3.12		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	6	5074497	54641141	Rat
4145119	Mcs25	Mammary carcinoma susceptibility QTL 25		0.0001	mammary gland integrity trait (VT:0010552)	ratio of deaths to total study population during a period of time (CMO:0001023)	6	10894415	110548006	Rat
1578665	Bss16	Bone structure and strength QTL 16	4.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	6	11735669	72593685	Rat
1578668	Bmd14	Bone mineral density QTL 14	3.8		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	6	11735669	72593685	Rat
10401812	Kidm54	Kidney mass QTL 54			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	6	14368788	59368788	Rat
10401800	Kidm49	Kidney mass QTL 49			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	6	14368788	59368788	Rat
1576309	Emca7	Estrogen-induced mammary cancer QTL 7	4		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	6	15107216	107351382	Rat
2292589	Emca10	Estrogen-induced mammary cancer QTL 10		0.048	mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	6	16536140	61536140	Rat
1354664	Slep2	Serum leptin concentration QTL 2	4.49		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	6	16536140	71636405	Rat
1641898	Colcr4	Colorectal carcinoma resistance QTL4	3.71	0.0007	intestine integrity trait (VT:0010554)	well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)	6	20338777	62613667	Rat
2293839	Kiddil2	Kidney dilation QTL 2	4.8		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	20866422	81133036	Rat
2293841	Kiddil4	Kidney dilation QTL 4	4.4		kidney pelvis morphology trait (VT:0004194)	hydronephrosis severity score (CMO:0001208)	6	20866422	81133036	Rat
1331779	Rf38	Renal function QTL 38	2.876		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	6	32074428	72227641	Rat
634318	Bw118	Body weight QTL 118	3.55		abdominal fat pad mass (VT:1000711)	abdominal fat pad weight (CMO:0000088)	6	33309549	57730294	Rat
6893340	Cm77	Cardiac mass QTL 77	0.26	0.57	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	6	33309549	81132889	Rat
1300143	Rf14	Renal function QTL 14	2.92		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	6	34434137	77102317	Rat
1354632	Scl29	Serum cholesterol level QTL 29	3.74		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	6	35098709	71636405	Rat
634307	Bp141	Blood pressure QTL 141	4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	6	35230417	80230417	Rat
70199	Coreg1	Compensatory renal growth QTL 1	11.8		kidney mass (VT:0002707)	compensatory renal growth score (CMO:0001894)	6	35691618	57730540	Rat

Markers in Region

RH127887

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	35,996,593 - 35,996,784 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	38,423,017 - 38,423,207	NCBI	Rnor6.0
Rnor_5.0	6	47,188,822 - 47,189,012	UniSTS	Rnor5.0
RGSC_v3.4	6	36,794,727 - 36,794,917	UniSTS	RGSC3.4
Celera	6	35,359,169 - 35,359,359	UniSTS
Cytogenetic Map	6	q15-q16	UniSTS

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_053414	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AH009557	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC082049	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473947	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ226373	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ227615	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000164	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000009100 ⟹ ENSRNOP00000009100

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	6	35,996,469 - 36,027,365 (-)	Ensembl
Rnor_6.0 Ensembl	6	38,422,888 - 38,453,797 (-)	Ensembl

RefSeq Acc Id:

NM_053414 ⟹ NP_445866

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	6	35,996,469 - 36,027,340 (-)	NCBI
Rnor_6.0	6	38,422,892 - 38,453,762 (-)	NCBI
Rnor_5.0	6	47,188,697 - 47,219,567 (-)	NCBI
RGSC_v3.4	6	36,794,602 - 36,825,473 (-)	RGD
Celera	6	35,359,044 - 35,389,916 (-)	RGD

Sequence:

show sequence

CTGGAAGGAGGGATCGACCGGGCCGGCAGCGGAGGAGTGCGGGAAGATGGCGGCCTTCTCCGAA
ATGGGTGTTATGCCCGAGATTGCACAAGCCGTGGAGGAGATGGATTGGCTTCTACCCACTGATA
TCCAGGCAGAATCTATCCCATTGATCCTAGGAGGAGGTGATGTACTTATGGCTGCAGAAACGGG
AAGTGGAAAAACTGGTGCATTTAGTATTCCAGTTATCCAGATAGTGTATGAGACTCTGAAAGAC
CAACAGGAAGGAAAGAAAGGGAAAGCAACTATTAAAACTGGTGCTTCTGTGCTCAACAAGTGGC
AGATGAACCCATATGATAGAGGGTCTGCTTTTGCAATTGGGTCAGATGGTCTGTGTTGTCAGAG
CAGAGAGGTGAAGGAGTGGCATGGGTGCAGAGCGACTAGAGGACTGCTGAGAGGGAAGCACTAC
TACGAAGTATCCTGTCATGACCAAGGGCTGTGCAGAGTTGGGTGGTCCACCATGCAGGCTTCCT
TAGACCTGGGTACTGACAAGTTTGGATTTGGCTTCGGTGGAACAGGAAAGAAATCTCATAATAA
ACAATTTGATAATTATGGAGAGGAATTCACTATGCATGACACCATTGGATGTTACTTAGACATC
GATAAAGGGCACGTGAAGTTCTCTAAGAATGGAAAAGACCTTGGTCTGGCATTTGAAATACCTG
CACACATAAAAAACCAAGCCCTCTTCCCTGCCTGTGTTTTGAAGAATGCTGAATTGAAATTTAA
CTTTGGTGAAGAAGAATTTAAGTTTCCACCAAAAGATGGTTTTGTTGCTCTTTCCAAGGCCCCT
GATAGTTACGTCGTCAAATCGCAGCACACAGGTAATGCACAGGTGTCACAAACAAAATTTCTCC
CTAATGCTCCAAAAGCTCTTATTGTGGAACCCTCCAGAGAGTTAGCTGAGCAAACCTTGAACAA
TGTGAAACAGTTTAAGAAGTACATCGATAATCCTAAATTGCGGGAGCTTCTCATAATTGGTGGC
GTTGCAGCTCGGGATCAGCTCTCCGTTCTGGATAATGGGGTTGATATTGTCGTCGGTACTCCAG
GAAGATTAGATGATTTGGTGTCAACTGGAAAGCTCAACTTGTCTCAAGTTAGATTCCTGGTCCT
GGATGAAGCAGATGGGCTTCTCTCTCAAGGTTATTCTGACTTTATTAACAGGATGCACAACCAG
ATTCCTCAGATTACTTCTGATGGGAAAAGACTTCAGGTGATTGTTTGCTCTGCTACTCTGCATT
CTTTTGATGTAAAGAAACTATCTGAGAAGATAATGCATTTTCCCACGTGGGTGGATTTGAAAGG
AGAAGATTCTGTTCCTGATACTGTGCATCATGTCGTTGTTCCTGTGAACCCAAAAACTGACAGG
CTCTGGGAAAGGCTGGGGAAGAACCACATTCGAACCGATGATGTCCATGCAAAGGATAACACAA
GACCTGGTGCCAACAGTCCAGAGATGTGGTCTGAAGCTATTAAAATACTGAAGGGGGAGTATGC
TGTCCGAGCAATCAAGGAGCACAAGATGGATCAAGCAATTATCTTCTGTAGAACGAAAATTGAC
TGTGACAACTTGGAGCAGTACTTTATGCAGCAAGGAGGAGGACCTGATAAAAAAGGACACCAAT
TCTCATGTGTATGTCTTCATGGTGACAGAAAGCCTCACGAGAGAAAGCAGAACTTGGAACGATT
TAAGAAAGGAGACGTAAGATTCCTGATTTGCACAGACGTAGCTGCCAGAGGAATTGACATCCAC
GGTGTTCCTTATGTTATTAATGTCACCCTGCCTGATGAAAAGCAGAATTATGTGCACCGGATTG
GCAGAGTGGGGCGAGCTGAAAGGATGGGCCTGGCTATTTCCCTGGTGGCAACAGAGAAAGAAAA
GGTTTGGTATCACGTATGCAGCAACCGTGGGAAGGGATGCTATAACACTAGACTCAAGGAAGAT
GGCGGCTGTACTATCTGGTACAATGAAATGCAGCTACTTTCTGAGATAGAAGAACACCTGAACT
GTACCATTTCCCAGGTTGAGCCAGATATAAAGGTTCCAGTGGATGAGTTTGATGGGAAAGTTAC
ATATGGTCAGAAAAGAGCTGCTGGCGGTGGGAACTATAAAGGCCATGTGGACATCCTGGCACCT
ACCGTTCAAGAGTTGGCTGCCCTTGAAAAGGAAGCACAGACATCTTTCCTACACCTTGGCTACC
TTCCCAACCAGCTGTTCAGAACCTTCTGATTTCATGTAGATGGAGAAGGATTGGAGTAATCGCG
TCTGTAGTCTTAACTTAACGTGGTGGTGCTTCTGAGCACAGTGTTTACAGTAGCTGAACTATTA
CTGCTAACTCTGCATGTCGGCAAACACAAATCTTAGGAGTTCTTCATAAAATGGCCGCCTAATG
AAAATAAATTGGACAACTATATTTTCATGAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_445866	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAF81015	(Get FASTA)	NCBI Sequence Viewer
	AAF81016	(Get FASTA)	NCBI Sequence Viewer
	AAH82049	(Get FASTA)	NCBI Sequence Viewer
	EDM03114	(Get FASTA)	NCBI Sequence Viewer
	EDM03115	(Get FASTA)	NCBI Sequence Viewer
	EDM03116	(Get FASTA)	NCBI Sequence Viewer
	Q641Y8	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_445866 ⟸ NM_053414

- UniProtKB:

Q641Y8 (UniProtKB/Swiss-Prot), A6HAQ9 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIV
YETLKDQQEGKKGKATIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATRGL
LRGKHYYEVSCHDQGLCRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTI
GCYLDIDKGHVKFSKNGKDLGLAFEIPAHIKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFV
ALSKAPDSYVVKSQHTGNAQVSQTKFLPNAPKALIVEPSRELAEQTLNNVKQFKKYIDNPKLRE
LLIIGGVAARDQLSVLDNGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFI
NRMHNQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPV
NPKTDRLWERLGKNHIRTDDVHAKDNTRPGANSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIF
CRTKIDCDNLEQYFMQQGGGPDKKGHQFSCVCLHGDRKPHERKQNLERFKKGDVRFLICTDVAA
RGIDIHGVPYVINVTLPDEKQNYVHRIGRVGRAERMGLAISLVATEKEKVWYHVCSNRGKGCYN
TRLKEDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVDEFDGKVTYGQKRAAGGGNYKGH
VDILAPTVQELAALEKEAQTSFLHLGYLPNQLFRTF

hide sequence

RefSeq Acc Id:

ENSRNOP00000009100 ⟸ ENSRNOT00000009100

Protein Domains

B30.2/SPRY DEAD/DEAH box helicase Helicase ATP-binding Helicase C-terminal

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q641Y8-F1-model_v2	AlphaFold	Q641Y8	1-740	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:619903	AgrOrtholog
BioCyc Gene	G2FUF-38124	BioCyc
Ensembl Genes	ENSRNOG00000006652	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000009100	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000009100	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	2.60.120.920	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	3.40.50.300	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7131804	IMAGE-MGC_LOAD
InterPro	B30.2/SPRY	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	B30.2/SPRY_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ConA-like_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	DEAD/DEAH_box_helicase_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Helicase_ATP-bd	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Helicase_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	P-loop_NTPase	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	RNA_helicase_DEAD_Q_motif	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SPRY_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:84474	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:95195	IMAGE-MGC_LOAD
NCBI Gene	84474	ENTREZGENE
PANTHER	ATP-DEPENDENT RNA HELICASE DDX1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	B30.2/SPRY DOMAIN-CONTAINING PROTEIN-RELATED	UniProtKB/TrEMBL
	HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN U FAMILY MEMBER	UniProtKB/TrEMBL
	RNA HELICASE	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	DEAD	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Helicase_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SPRY	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Ddx1	PhenoGen
PROSITE	B302_SPRY	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	HELICASE_ATP_BIND_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	HELICASE_CTER	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Q_MOTIF	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	DEXDc	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	HELICc	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SPRY	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF49899	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF52540	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A6HAQ9	ENTREZGENE, UniProtKB/TrEMBL
	A6HAR0_RAT	UniProtKB/TrEMBL
	A6HAR1_RAT	UniProtKB/TrEMBL
	DDX1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
	Q9JIJ7_RAT	UniProtKB/TrEMBL
	Q9JIJ8_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-10-05	Ddx1	DEAD-box helicase 1	Ddx1	DEAD/H-box helicase 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2016-01-13	Ddx1	DEAD/H-box helicase 1	Ddx1	DEAD (Asp-Glu-Ala-Asp) box helicase 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-07-16	Ddx1	DEAD (Asp-Glu-Ala-Asp) box helicase 1	Ddx1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-09-10	Ddx1	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1		DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 1	Name updated	1299863	APPROVED
2002-08-07	Ddx1	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 1			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_regulation	expression is amplified in estrogen-dependent endometrial adenocarcinoma	632515

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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Imported Disease Annotations - CTD

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