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

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Gene: Ddx50 (DExD-box helicase 50) Rattus norvegicus
Analyze
Symbol: Ddx50
Name: DExD-box helicase 50
RGD ID: 1310934
Description: Predicted to enable RNA binding activity and RNA helicase 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; 3H-1,2-dithiole-3-thione; aripiprazole.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: ATP-dependent RNA helicase DDX50; DEAD (Asp-Glu-Ala-Asp) box polypeptide 50; DEAD-box helicase 50; LOC361848; MGC109605
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22030,561,623 - 30,591,324 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl2032,239,748 - 32,269,145 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02032,239,736 - 32,269,522 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02034,024,302 - 34,054,135 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42029,867,955 - 29,897,253 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12029,881,754 - 29,900,262 (-)NCBI
Celera2031,980,681 - 32,009,951 (-)NCBICelera
Cytogenetic Map20q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleolus  (IBA,ISO)
plasma membrane  (IEA,ISO)

Molecular Function

References

Additional References at PubMed
PMID:19946888   PMID:22658674   PMID:22681889  


Genomics

Comparative Map Data
Ddx50
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22030,561,623 - 30,591,324 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl2032,239,748 - 32,269,145 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02032,239,736 - 32,269,522 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02034,024,302 - 34,054,135 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42029,867,955 - 29,897,253 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12029,881,754 - 29,900,262 (-)NCBI
Celera2031,980,681 - 32,009,951 (-)NCBICelera
Cytogenetic Map20q11NCBI
DDX50
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1068,901,286 - 68,946,847 (+)EnsemblGRCh38hg38GRCh38
GRCh381068,898,817 - 68,956,312 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371070,661,071 - 70,706,603 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361070,331,040 - 70,376,609 (+)NCBINCBI36hg18NCBI36
Build 341070,331,039 - 70,376,608NCBI
Celera1063,936,917 - 63,982,475 (+)NCBI
Cytogenetic Map10q22.1NCBI
HuRef1064,662,530 - 64,708,505 (+)NCBIHuRef
CHM1_11070,942,658 - 70,988,331 (+)NCBICHM1_1
Ddx50
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391062,451,571 - 62,487,260 (-)NCBIGRCm39mm39
GRCm39 Ensembl1062,451,674 - 62,486,997 (-)Ensembl
GRCm381062,615,792 - 62,658,764 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1062,615,895 - 62,651,218 (-)EnsemblGRCm38mm10GRCm38
MGSCv371062,078,771 - 62,113,946 (-)NCBIGRCm37mm9NCBIm37
MGSCv361062,011,380 - 62,046,555 (-)NCBImm8
Celera1063,719,405 - 63,752,831 (-)NCBICelera
Cytogenetic Map10B4NCBI
Ddx50
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543722,086,704 - 22,118,177 (-)NCBIChiLan1.0ChiLan1.0
DDX50
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11067,902,219 - 67,948,207 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1067,902,219 - 67,948,207 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01065,367,689 - 65,414,023 (+)NCBIMhudiblu_PPA_v0panPan3
DDX50
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1420,073,013 - 20,102,622 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl420,073,094 - 20,102,606 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha420,203,664 - 20,233,018 (+)NCBI
ROS_Cfam_1.0420,345,617 - 20,374,931 (+)NCBI
UMICH_Zoey_3.1420,246,345 - 20,275,650 (+)NCBI
UNSW_CanFamBas_1.0420,449,176 - 20,478,530 (+)NCBI
UU_Cfam_GSD_1.0420,792,305 - 20,821,657 (+)NCBI
Ddx50
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721360,965,596 - 61,000,626 (-)NCBI
SpeTri2.0NW_0049365219,463,049 - 9,493,341 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDX50
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1471,989,532 - 72,030,994 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11471,989,137 - 72,030,996 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21478,004,480 - 78,045,914 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DDX50
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1962,378,977 - 62,424,108 (-)NCBI
ChlSab1.1 Ensembl962,377,491 - 62,424,006 (-)Ensembl
Vero_WHO_p1.0NW_02366604823,121,101 - 23,168,135 (-)NCBI
Ddx50
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247543,125,357 - 3,171,584 (+)NCBI

Position Markers
D4Rat71  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22030,582,959 - 30,583,440 (+)MAPPERmRatBN7.2
Rnor_6.02032,261,100 - 32,261,580NCBIRnor6.0
Rnor_5.02034,045,664 - 34,046,144UniSTSRnor5.0
RGSC_v3.42029,889,277 - 29,889,757UniSTSRGSC3.4
RGSC_v3.42029,889,266 - 29,889,757RGDRGSC3.4
RGSC_v3.12029,903,077 - 29,903,557RGD
Celera2032,002,002 - 32,002,482UniSTS
RH 3.4 Map20308.66RGD
RH 3.4 Map20308.66UniSTS
RH 2.0 Map20341.1RGD
SHRSP x BN Map497.7399RGD
Cytogenetic Map20q11UniSTS
BF389733  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22030,576,211 - 30,576,458 (+)MAPPERmRatBN7.2
Rnor_6.02032,254,356 - 32,254,602NCBIRnor6.0
Rnor_5.02034,038,920 - 34,039,166UniSTSRnor5.0
RGSC_v3.42029,882,532 - 29,882,778UniSTSRGSC3.4
Celera2031,995,258 - 31,995,504UniSTS
RH 3.4 Map20308.28UniSTS
Cytogenetic Map20q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201383430956205956Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201383430956205956Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201782709656205956Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201887215049108956Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)202085847056205956Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202660884356205956Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202660884356205956Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202660884356205956Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202671232356205956Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)203091348156205956Rat

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.


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

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000446   ⟹   ENSRNOP00000000446
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2032,239,748 - 32,269,145 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082114   ⟹   ENSRNOP00000070398
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2032,239,748 - 32,258,286 (-)Ensembl
RefSeq Acc Id: NM_001013198   ⟹   NP_001013216
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,561,633 - 30,590,941 (-)NCBI
Rnor_6.02032,239,748 - 32,269,145 (-)NCBI
Rnor_5.02034,024,302 - 34,054,135 (-)NCBI
RGSC_v3.42029,867,955 - 29,897,253 (-)RGD
Celera2031,980,681 - 32,009,951 (-)RGD
Sequence:
RefSeq Acc Id: XM_017601693   ⟹   XP_017457182
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,561,623 - 30,591,324 (-)NCBI
Rnor_6.02032,239,736 - 32,269,522 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098878   ⟹   XP_038954806
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,561,623 - 30,591,322 (-)NCBI
RefSeq Acc Id: XM_039098879   ⟹   XP_038954807
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,561,623 - 30,591,322 (-)NCBI
RefSeq Acc Id: XM_039098880   ⟹   XP_038954808
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,561,623 - 30,590,738 (-)NCBI
RefSeq Acc Id: XM_039098881   ⟹   XP_038954809
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,561,623 - 30,590,738 (-)NCBI
RefSeq Acc Id: XM_039098882   ⟹   XP_038954810
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22030,561,623 - 30,591,322 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001013216   ⟸   NM_001013198
- UniProtKB: D3ZG48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457182   ⟸   XM_017601693
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000070398   ⟸   ENSRNOT00000082114
RefSeq Acc Id: ENSRNOP00000000446   ⟸   ENSRNOT00000000446
RefSeq Acc Id: XP_038954806   ⟸   XM_039098878
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954810   ⟸   XM_039098882
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954807   ⟸   XM_039098879
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954809   ⟸   XM_039098881
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954808   ⟸   XM_039098880
- Peptide Label: isoform X2
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 AssemblyChrPosition (strand)Source
Rnor_6.02032,269,111 - 32,269,171EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
BBDP/Wor (RGD)
Visual CSV TAB Printer
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)
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
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
MHS/Gib (RGD)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
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)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310934 AgrOrtholog
Ensembl Genes ENSRNOG00000000396 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000446 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070398 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000446 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000082114 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
  RNA_helicase_DEAD_Q_motif UniProtKB/TrEMBL
KEGG Report rno:361848 UniProtKB/TrEMBL
MGC_CLONE MGC:109605 IMAGE-MGC_LOAD
NCBI Gene 361848 ENTREZGENE
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
  Q_MOTIF UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
  SSF54928 UniProtKB/TrEMBL
UniProt 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