Ddx50 (DExD-box helicase 50) - Rat Genome Database

Name: Ddx50
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Ddx50 (DExD-box helicase 50) Rattus norvegicus

Analyze

Symbol:

Ddx50

Name:

DExD-box helicase 50

RGD ID:

1310934

Description:

Predicted to enable RNA helicase activity and mRNA binding activity. Predicted to be located in plasma membrane. Predicted to be active in nucleolus. Orthologous to human DDX50 (DExD-box helicase 50); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

ATP-dependent RNA helicase DDX50; DEAD (Asp-Glu-Ala-Asp) box polypeptide 50; DEAD-box helicase 50; LOC361848; MGC109605

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):	DDX50 (DExD-box helicase 50)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Ddx50 (DExD box helicase 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ddx50 (DExD-box helicase 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	DDX50 (DExD-box helicase 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	DDX50 (DExD-box helicase 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ddx50 (DExD-box helicase 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	DDX50 (DExD-box helicase 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	DDX50 (DExD-box helicase 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ddx50 (DExD-box helicase 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	DDX50 (DExD-box helicase 50)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ddx50 (DExD box helicase 50)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ddx21 (DEAD (Asp-Glu-Ala-Asp) box helicase 21)	Alliance	DIOPT (OrthoFinder\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	ddx21	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER)

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	20	31,104,354 - 31,133,652 (-)	NCBI		GRCr8
mRatBN7.2	20	30,561,623 - 30,591,324 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	30,560,544 - 30,591,152 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	31,572,595 - 31,601,894 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	30,963,508 - 30,992,808 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	31,700,270 - 31,729,596 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	32,239,736 - 32,269,522 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	32,239,748 - 32,269,145 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	34,024,302 - 34,054,135 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	20	29,867,955 - 29,897,253 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	20	29,881,754 - 29,900,262 (-)	NCBI
Celera	20	31,980,681 - 32,009,951 (-)	NCBI		Celera
Cytogenetic Map	20	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

prostate cancer (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(-)-demecolcine (ISO)

(1->4)-beta-D-glucan (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

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

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

3H-1,2-dithiole-3-thione (EXP)

5-aza-2'-deoxycytidine (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

aripiprazole (EXP)

aristolochic acid A (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

butanal (ISO)

CGP 52608 (ISO)

choline (ISO)

cisplatin (ISO)

cocaine (EXP)

coumarin (ISO)

cyclosporin A (ISO)

dicrotophos (ISO)

doxorubicin (ISO)

fenvalerate (EXP)

folic acid (ISO)

formaldehyde (ISO)

FR900359 (ISO)

furan (EXP)

gallic acid (ISO)

gentamycin (EXP)

hydrogen peroxide (ISO)

ivermectin (ISO)

L-methionine (ISO)

methyl methanesulfonate (ISO)

ochratoxin A (ISO)

perfluorononanoic acid (ISO)

perfluorooctane-1-sulfonic acid (ISO)

raloxifene (EXP)

resveratrol (ISO)

succimer (ISO)

tamoxifen (ISO)

tert-butyl hydroperoxide (ISO)

testosterone (ISO)

tetrachloromethane (EXP)

tetrahydropalmatine (ISO)

trichostatin A (ISO)

valproic acid (ISO)

vincristine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

response to cold (IEA)

Cellular Component

cytosol (IEA)

nucleolus (IBA,ISO)

plasma membrane (IEA,ISO)

ribosome (IEA)

Molecular Function

ATP binding (IEA)

hydrolase activity (IEA)

mRNA binding (IBA)

RNA helicase activity (IBA)

RNA strand annealing activity (IEA)

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.	GOA pipeline	RGD automated data pipeline
3.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
5.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:19946888	PMID:22658674	PMID:22681889

Genomics

Comparative Map Data

Ddx50
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	31,104,354 - 31,133,652 (-)	NCBI		GRCr8
mRatBN7.2	20	30,561,623 - 30,591,324 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	30,560,544 - 30,591,152 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	31,572,595 - 31,601,894 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	30,963,508 - 30,992,808 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	31,700,270 - 31,729,596 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	32,239,736 - 32,269,522 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	32,239,748 - 32,269,145 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	34,024,302 - 34,054,135 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	20	29,867,955 - 29,897,253 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	20	29,881,754 - 29,900,262 (-)	NCBI
Celera	20	31,980,681 - 32,009,951 (-)	NCBI		Celera
Cytogenetic Map	20	q11	NCBI

DDX50
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	68,901,315 - 68,946,847 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	68,901,286 - 68,946,847 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	70,661,071 - 70,706,603 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	70,331,040 - 70,376,609 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	70,331,039 - 70,376,608	NCBI
Celera	10	63,936,917 - 63,982,475 (+)	NCBI		Celera
Cytogenetic Map	10	q22.1	NCBI
HuRef	10	64,662,530 - 64,708,505 (+)	NCBI		HuRef
CHM1_1	10	70,942,658 - 70,988,331 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	10	69,770,124 - 69,825,744 (+)	NCBI		T2T-CHM13v2.0

Ddx50
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	10	62,451,571 - 62,487,260 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	10	62,451,674 - 62,486,997 (-)	Ensembl		GRCm39 Ensembl
GRCm38	10	62,615,792 - 62,658,764 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	10	62,615,895 - 62,651,218 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	10	62,078,771 - 62,113,946 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	10	62,011,380 - 62,046,555 (-)	NCBI		MGSCv36	mm8
Celera	10	63,719,405 - 63,752,831 (-)	NCBI		Celera
Cytogenetic Map	10	B4	NCBI
cM Map	10	32.44	NCBI

Ddx50
(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	NW_004955437	22,086,704 - 22,118,177 (-)	NCBI	ChiLan1.0	ChiLan1.0

DDX50
(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	8	81,042,949 - 81,102,571 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	81,048,577 - 81,098,407 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	65,367,689 - 65,414,023 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	67,902,219 - 67,948,207 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	67,902,219 - 67,948,207 (+)	Ensembl	panpan1.1		panPan2

DDX50
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	4	20,073,013 - 20,102,622 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	4	20,073,094 - 20,102,606 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	4	20,203,664 - 20,233,018 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	4	20,345,617 - 20,374,931 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	4	20,345,637 - 20,374,939 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	4	20,246,345 - 20,275,650 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	4	20,449,176 - 20,478,530 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	4	20,792,305 - 20,821,657 (+)	NCBI		UU_Cfam_GSD_1.0

Ddx50
(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_024407213	60,965,596 - 61,000,626 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936521	9,458,329 - 9,493,319 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936521	9,463,049 - 9,493,341 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

DDX50
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	71,989,584 - 72,030,980 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	71,989,137 - 72,030,996 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	78,004,480 - 78,045,914 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

DDX50
(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	9	62,378,977 - 62,424,108 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	62,377,491 - 62,424,006 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	23,121,101 - 23,168,135 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ddx50
(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_004624754	3,125,155 - 3,171,584 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624754	3,125,357 - 3,171,584 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Ddx50
66 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	18
Count of miRNA genes:	17
Interacting mature miRNAs:	18
Transcripts:	ENSRNOT00000000446
Prediction methods:	Miranda
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
6893685	Bw111	Body weight QTL 111	2.7	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	20	1	32578807	Rat
7411668	Foco32	Food consumption QTL 32	8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	36600972	Rat
9590252	Scort12	Serum corticosterone level QTL 12	20.46	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	36600972	Rat
2305926	Iddm37	Insulin dependent diabetes mellitus QTL 37	6		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	20	1527842	46527842	Rat
1641915	Colcr9	Colorectal carcinoma resistance QTL 9	2.97	0.0024	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	20	1530655	46530655	Rat
1598816	Memor12	Memory QTL 12	2.4		exploratory behavior trait (VT:0010471)	average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)	20	2606836	47606836	Rat
7411652	Foco24	Food consumption QTL 24		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	11757515	54435887	Rat
9590092	Insglur9	Insulin/glucose ratio QTL 9	18.38	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	20	11757515	54435887	Rat
4889610	Pancm3	Pancreatic morphology QTL 3	3.75	0.001	pancreas mass (VT:0010144)	pancreas wet weight (CMO:0000626)	20	17617832	47606836	Rat
2317880	Alcrsp25	Alcohol response QTL 25	2.3		response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	17697550	54435887	Rat
2303626	Vencon10	Ventilatory control QTL 10		0.001	respiration trait (VT:0001943)	respiration rate (CMO:0000289)	20	19190721	54435887	Rat
2303578	Gluco50	Glucose level QTL 50	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	20	25106722	54435887	Rat
2303587	Bw93	Body weight QTL 93	13		body mass (VT:0001259)	body weight (CMO:0000012)	20	25106722	54435887	Rat
2300188	Bmd68	Bone mineral density QTL 68	6.4	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	20	25106722	54435887	Rat
1331747	Hrtrt16	Heart rate QTL 16	3.163		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	20	25209734	54435887	Rat
1598869	Memor6	Memory QTL 6	3.1		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	20	29244388	54435887	Rat

Markers in Region

D4Rat71

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	30,582,959 - 30,583,440 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	32,261,100 - 32,261,580	NCBI	Rnor6.0
Rnor_5.0	20	34,045,664 - 34,046,144	UniSTS	Rnor5.0
RGSC_v3.4	20	29,889,277 - 29,889,757	UniSTS	RGSC3.4
RGSC_v3.4	20	29,889,266 - 29,889,757	RGD	RGSC3.4
RGSC_v3.1	20	29,903,077 - 29,903,557	RGD
Celera	20	32,002,002 - 32,002,482	UniSTS
RH 3.4 Map	20	308.66	RGD
RH 3.4 Map	20	308.66	UniSTS
RH 2.0 Map	20	341.1	RGD
SHRSP x BN Map	4	97.7399	RGD
Cytogenetic Map	20	q11	UniSTS

BF389733

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	30,576,211 - 30,576,458 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	32,254,356 - 32,254,602	NCBI	Rnor6.0
Rnor_5.0	20	34,038,920 - 34,039,166	UniSTS	Rnor5.0
RGSC_v3.4	20	29,882,532 - 29,882,778	UniSTS	RGSC3.4
Celera	20	31,995,258 - 31,995,504	UniSTS
RH 3.4 Map	20	308.28	UniSTS
Cytogenetic Map	20	q11	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	10	74	35	41	11	8
Low								1
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001013198	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC091427	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ225716	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000020	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000000446 ⟹ ENSRNOP00000000446

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	30,561,640 - 30,591,152 (-)	Ensembl
Rnor_6.0 Ensembl	20	32,239,748 - 32,269,145 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000082114 ⟹ ENSRNOP00000070398

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	30,561,635 - 30,580,144 (-)	Ensembl
Rnor_6.0 Ensembl	20	32,239,748 - 32,258,286 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000107767 ⟹ ENSRNOP00000076640

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	30,560,544 - 30,576,055 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000117657 ⟹ ENSRNOP00000097507

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	20	30,560,544 - 30,590,952 (-)	Ensembl

RefSeq Acc Id:

NM_001013198 ⟹ NP_001013216

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	31,104,354 - 31,133,652 (-)	NCBI
mRatBN7.2	20	30,561,633 - 30,590,941 (-)	NCBI
Rnor_6.0	20	32,239,748 - 32,269,145 (-)	NCBI
Rnor_5.0	20	34,024,302 - 34,054,135 (-)	NCBI
RGSC_v3.4	20	29,867,955 - 29,897,253 (-)	RGD
Celera	20	31,980,681 - 32,009,951 (-)	RGD

Sequence:

show sequence

ACGGTCCTGGCCGGCGGCCGCCCAGCCCCCGCTTCCTTTCACGCTATCGGTGGCCGTAGGTGGT
CGTGGCCACCGCACCCGGCGGGAGGTGGCGGCGGCCAGTAATGCCCGGGAAACTCCTCTGGGGA
GACATCATGGAGCTCGAGGCACCCTTGGAAGAGTCCGAGAGCCAGAGGAAGGAGCGGCAAAAGA
ATGATAGAAGGAAGTCAAGGCACCATTCTGAATCAGAGGAGAGAACAGAAACAAGAGAAAATGG
TGTTACAGATGACCTGGATGCTCCCAAGCCCAAAAAAGCTAAAACGAGAGAGAAGCTAAATGGA
GACACCAAAGAAGGACTTAGATTTTCAGATGAATTTTCCCCATCTCATAAGTCAAGAAGAAAAG
ACCTGCCAAATGGAGATGTGGATGAGTATGAGAAAAGGTCTAAACGAGTGTCATCCTCAGAAAA
CTCTCACAAGTCAAGTGATAAAGCAGATGAGACTCTAACACGTGAGCAAAAGGAAGGAGCCTTC
TCTAATTTCTCCATTTCTGAGGAGACCATAAAGCTTCTGAAAGGTCGAGGGGTAACATATCTCT
TTCCTATTCAAGTTAAAACCTTTGGCCCTGTCTATGAAGGAAAAGACTTAATTGCTCAAGCCCG
GACAGGAACAGGAAAGACATTCTCTTTTGCCATACCCTTGATTGAAAGGCTCCAAAGAAATCAA
GAAACAATTAAAAAAAGCCGCTCACCAAAGGTACTCGTTTTGGCTCCAACAAGGGAATTGGCAA
ATCAAGTAGCCAAAGATTTCAAAGATATAACTAGAAAACTCAATGTGGCGTGTTTTTATGGTGG
AACATCATATCAAAGCCAGATTAATCAAATTCGGAATGGTATTGACATCCTTGTTGGGACCCCA
GGACGTATCAAAGACCATCTGCAAAGCGGCCGTTTGGATCTTTCAAAGCTTCGCCATGTTGTAC
TTGATGAAGTAGATCAAATGTTAGATTTAGGTTTTGCTGAACAAGTTGAAGATATTATTCATGA
ATCCTATAAATCTGATTCAGAAGACAATCCTCAGACCTTACTTTTTTCTGCAACTTGCCCACAG
TGGGTATACAAAGTTGCAAAAAAATACATGAAATCCAGATATGAACAGGTTGACCTTGTTGGAA
AAATGACTCAAAAAGCTGCAACCACTGTGGAACATTTGGCTATCCAGTGCCACTGGTCCCAGAG
ACCAGCAGTTATTGGAGATGTCCTTCAGGTCTACAGTGGATCTGAAGGGAGAGCTATTATCTTC
TGTGAGACTAAGAAGAATGTTACTGAAATGGCCATGAATCCACACATAAAGCAGAACGCACAGT
GTTTGCATGGAGATATTGCACAGTCACAAAGAGAAATTACCTTGAAAGGCTTCAGAGAAGGTAG
TTTTAAAGTTTTGGTGGCAACCAATGTGGCTGCTCGTGGCTTGGACATTCCTGAAGTTGATCTT
GTGATTCAGAGTTCTCCTCCACAGGATGTTGAATCCTATATCCATCGCTCTGGACGCACAGGTA
GAGCTGGCCGGACAGGAATTTGTGTATGTTTTTATCAACCAAGGGAAAGAGGTCAACTGAGATA
TGTGGAACAGAAAGCAGGAATTACTTTTAAACGTGTAGGTGTTCCTTCTACAATGGATTTAGTT
AAATCTAAAAGCATGGATGCCATCAGGTCTCTGGCTTCTGTTTCTTATGCTGCTGTTGATTTTT
TCCGACCATCAGCTCAAAGACTGATAGAAGAGAAGGGGGCAGTGGATGCATTGGCTGCAGCCTT
AGCTCACATTTCTGGTGCATCAAGCTTTGAACCCCGATCTTTGATCACCTCTGATAAGGGGTTT
GTGACCATGACTCTGGAAAGCCCAGAAGAAATACAGGATGTCAGCTGTGCTTGGAAGGAACTTA
ATAGAAAGCTCAGTAGTAATGCTGTGTCTCAAGTAACCAGAATGTGCCTCCTGAAAGGAAATAT
GGGTGTTTGCTTTGATGTTCCTACAAGTGAGTCAGAAAGATTACAGGCAGAGTGGCATGACTCA
GACTGGATACTCTCAGTGCCAGCCAAGTTACCTGAAATTGAAGAATATTATGATGGAAACACAT
CTTCTAATCCCAGACAGAGGAGCGGCTGGTCTGGCGGCAGGTCAGGCCGTTCAGGCCGATCTGG
TGGTCGATCTGGTGGCCGATCAGGTAGACAGAGTCGACAGGGGAGTCGTTCAGGAAGTCGGCAA
GACGGTAGAAGACGAAGTGGGAACAGAAATCGATCAAGAAGTGGGGGCCATAAACGGAGTTTTG
ACTGAGTGTTTGATAGTTAATCTTCCAGTGTGAGCTTGCCTATTTCTGTCTAATCATGTATATT
ATTCACCAAAAATTAGATCATCATAGTTGAGGTATTTGTCTGTAATTTGCAAAGAAGTTGGTCG
TATTTTTTTAAAAAGTATTTCACAAGAATGGTTCTAAACAAATCTACTTATCTGGCTATACCTT
TGAATTAAAAAGAAAGCCCTTTTAT

hide sequence

Protein Sequences


Protein RefSeqs	NP_001013216	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH91427	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000000446.6
	ENSRNOP00000070398.1
	ENSRNOP00000076640.1
	ENSRNOP00000097507
	ENSRNOP00000097507.1

RefSeq Acc Id:

NP_001013216 ⟸ NM_001013198

- UniProtKB:

D3ZG48 (UniProtKB/TrEMBL), A0A8I6AUH3 (UniProtKB/TrEMBL), A6K459 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MPGKLLWGDIMELEAPLEESESQRKERQKNDRRKSRHHSESEERTETRENGVTDDLDAPKPKKA
KTREKLNGDTKEGLRFSDEFSPSHKSRRKDLPNGDVDEYEKRSKRVSSSENSHKSSDKADETLT
REQKEGAFSNFSISEETIKLLKGRGVTYLFPIQVKTFGPVYEGKDLIAQARTGTGKTFSFAIPL
IERLQRNQETIKKSRSPKVLVLAPTRELANQVAKDFKDITRKLNVACFYGGTSYQSQINQIRNG
IDILVGTPGRIKDHLQSGRLDLSKLRHVVLDEVDQMLDLGFAEQVEDIIHESYKSDSEDNPQTL
LFSATCPQWVYKVAKKYMKSRYEQVDLVGKMTQKAATTVEHLAIQCHWSQRPAVIGDVLQVYSG
SEGRAIIFCETKKNVTEMAMNPHIKQNAQCLHGDIAQSQREITLKGFREGSFKVLVATNVAARG
LDIPEVDLVIQSSPPQDVESYIHRSGRTGRAGRTGICVCFYQPRERGQLRYVEQKAGITFKRVG
VPSTMDLVKSKSMDAIRSLASVSYAAVDFFRPSAQRLIEEKGAVDALAAALAHISGASSFEPRS
LITSDKGFVTMTLESPEEIQDVSCAWKELNRKLSSNAVSQVTRMCLLKGNMGVCFDVPTSESER
LQAEWHDSDWILSVPAKLPEIEEYYDGNTSSNPRQRSGWSGGRSGRSGRSGGRSGGRSGRQSRQ
GSRSGSRQDGRRRSGNRNRSRSGGHKRSFD

hide sequence

RefSeq Acc Id:

ENSRNOP00000070398 ⟸ ENSRNOT00000082114

RefSeq Acc Id:

ENSRNOP00000000446 ⟸ ENSRNOT00000000446

RefSeq Acc Id:

ENSRNOP00000076640 ⟸ ENSRNOT00000107767

RefSeq Acc Id:

ENSRNOP00000097507 ⟸ ENSRNOT00000117657

Protein Domains

Helicase ATP-binding Helicase C-terminal

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZG48-F1-model_v2	AlphaFold	D3ZG48	1-734	view protein structure

Transcriptome

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

Promoters

RGD ID:

13701617

Promoter ID:

EPDNEW_R12141

Type:

initiation region

Name:

Ddx50_1

Description:

DExD-box helicase 50

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	20	32,269,111 - 32,269,171	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310934	AgrOrtholog
BioCyc Gene	G2FUF-3683	BioCyc
Ensembl Genes	ENSRNOG00000000396	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000000446.7	UniProtKB/TrEMBL
	ENSRNOT00000082114.2	UniProtKB/TrEMBL
	ENSRNOT00000107767.1	UniProtKB/TrEMBL
	ENSRNOT00000117657	ENTREZGENE
	ENSRNOT00000117657.1	UniProtKB/TrEMBL
Gene3D-CATH	3.30.70.2280	UniProtKB/TrEMBL
	3.40.50.300	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7366491	IMAGE-MGC_LOAD
InterPro	DNA/RNA_helicase_C	UniProtKB/TrEMBL
	DNA/RNA_helicase_DEAD/DEAH_N	UniProtKB/TrEMBL
	GUCT	UniProtKB/TrEMBL
	Helicase_ATP-bd	UniProtKB/TrEMBL
	P-loop_NTPase	UniProtKB/TrEMBL
	RBD_domain_sf	UniProtKB/TrEMBL
KEGG Report	rno:361848	UniProtKB/TrEMBL
MGC_CLONE	MGC:109605	IMAGE-MGC_LOAD
NCBI Gene	361848	ENTREZGENE
PANTHER	ATP-DEPENDENT RNA HELICASE DEAD	UniProtKB/TrEMBL
	ATP-DEPENDENT RNA HELICASE RHLE	UniProtKB/TrEMBL
	ATP-DEPENDENT RNA HELICASE RHLE-RELATED	UniProtKB/TrEMBL
	DEAD-BOX ATP-DEPENDENT RNA HELICASE 47, MITOCHONDRIAL	UniProtKB/TrEMBL
Pfam	DEAD	UniProtKB/TrEMBL
	GUCT	UniProtKB/TrEMBL
	Helicase_C	UniProtKB/TrEMBL
PhenoGen	Ddx50	PhenoGen
PROSITE	HELICASE_ATP_BIND_1	UniProtKB/TrEMBL
	HELICASE_CTER	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000000396	RatGTEx
SMART	DEXDc	UniProtKB/TrEMBL
	HELICc	UniProtKB/TrEMBL
Superfamily-SCOP	SSF52540	UniProtKB/TrEMBL
	SSF54928	UniProtKB/TrEMBL
UniProt	A0A8I5Y670_RAT	UniProtKB/TrEMBL
	A0A8I6AUH3	ENTREZGENE, UniProtKB/TrEMBL
	A6K459	ENTREZGENE, UniProtKB/TrEMBL
	A6K461_RAT	UniProtKB/TrEMBL
	D3ZG48	ENTREZGENE, UniProtKB/TrEMBL
	Q5BJM0_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-10-05	Ddx50	DExD-box helicase 50	Ddx50	DEAD-box helicase 50	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2016-01-13	Ddx50	DEAD-box helicase 50	Ddx50	DEAD (Asp-Glu-Ala-Asp) box polypeptide 50	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Ddx50	DEAD (Asp-Glu-Ala-Asp) box polypeptide 50	Ddx50_predicted	DEAD (Asp-Glu-Ala-Asp) box polypeptide 50 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Ddx50_predicted	DEAD (Asp-Glu-Ala-Asp) box polypeptide 50 (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)

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