Ddx6 (DEAD-box helicase 6) - Rat Genome Database

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Gene: Ddx6 (DEAD-box helicase 6) Rattus norvegicus
Analyze
Symbol: Ddx6
Name: DEAD-box helicase 6
RGD ID: 1564560
Description: Predicted to enable mRNA binding activity and protein domain specific binding activity. Involved in spermatid differentiation. Located in several cellular components, including chromatoid body; concave side of sperm head; and sperm flagellum. Orthologous to human DDX6 (DEAD-box helicase 6); PARTICIPATES IN microRNA pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,4-methylenedioxymethamphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: DEAD (Asp-Glu-Ala-Asp) box helicase 6; DEAD (Asp-Glu-Ala-Asp) box polypeptide 6; hypothetical protein LOC500988; LOC500988; probable ATP-dependent RNA helicase DDX6; RGD1564560; similar to RCK
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8853,827,661 - 53,864,538 (+)NCBIGRCr8
mRatBN7.2844,931,127 - 44,967,773 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl822,204,317 - 22,205,824 (-)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl844,931,974 - 44,964,405 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx850,426,881 - 50,459,302 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0848,705,602 - 48,738,020 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0846,576,050 - 46,608,655 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0848,924,768 - 48,961,394 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl848,925,604 - 48,958,026 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0847,543,067 - 47,579,713 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4847,573,536 - 47,605,957 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera844,516,910 - 44,549,312 (+)NCBICelera
Cytogenetic Map8q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dimethoxyphenol  (ISO)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
acetamide  (EXP)
acetazolamide  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
carbon nanotube  (ISO)
cefaloridine  (EXP)
chloroprene  (EXP)
chlorpyrifos  (ISO)
cocaine  (EXP)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyproconazole  (ISO)
dexamethasone  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
fenthion  (ISO)
folic acid  (ISO)
furfural  (ISO)
geldanamycin  (ISO)
gentamycin  (EXP)
glyphosate  (ISO)
indometacin  (ISO)
ivermectin  (ISO)
leflunomide  (ISO)
methidathion  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
progesterone  (ISO)
propiconazole  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
tert-butyl hydroperoxide  (ISO)
thimerosal  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichloroethene  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (EXP,ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. The role of disordered protein regions in the assembly of decapping complexes and RNP granules. Jonas S and Izaurralde E, Genes Dev. 2013 Dec 15;27(24):2628-41. doi: 10.1101/gad.227843.113.
3. DDX6 localizes to nuage structures and the annulus of mammalian spermatogenic cells. Kawahara C, etal., Histochem Cell Biol. 2014 Jan;141(1):111-21. doi: 10.1007/s00418-013-1153-2. Epub 2013 Oct 20.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:16699599   PMID:17392519   PMID:19946888   PMID:20014101   PMID:20616046   PMID:20826699   PMID:22022269   PMID:22658674   PMID:22681889   PMID:22915799   PMID:23125361   PMID:24768540  
PMID:25456498   PMID:25468996   PMID:25931508   PMID:26184334   PMID:31422817  


Genomics

Comparative Map Data
Ddx6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8853,827,661 - 53,864,538 (+)NCBIGRCr8
mRatBN7.2844,931,127 - 44,967,773 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl822,204,317 - 22,205,824 (-)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl844,931,974 - 44,964,405 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx850,426,881 - 50,459,302 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0848,705,602 - 48,738,020 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0846,576,050 - 46,608,655 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0848,924,768 - 48,961,394 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl848,925,604 - 48,958,026 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0847,543,067 - 47,579,713 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4847,573,536 - 47,605,957 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera844,516,910 - 44,549,312 (+)NCBICelera
Cytogenetic Map8q22NCBI
DDX6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811118,747,763 - 118,791,744 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11118,747,763 - 118,791,164 (-)EnsemblGRCh38hg38GRCh38
GRCh3711118,618,472 - 118,662,453 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611118,125,623 - 118,167,082 (-)NCBINCBI36Build 36hg18NCBI36
Build 3411118,125,622 - 118,167,082NCBI
Celera11115,780,242 - 115,819,622 (-)NCBICelera
Cytogenetic Map11q23.3NCBI
HuRef11114,556,823 - 114,600,235 (-)NCBIHuRef
CHM1_111118,505,094 - 118,548,632 (-)NCBICHM1_1
T2T-CHM13v2.011118,766,827 - 118,810,815 (-)NCBIT2T-CHM13v2.0
Ddx6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39944,514,113 - 44,552,028 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl944,516,189 - 44,552,028 (+)EnsemblGRCm39 Ensembl
GRCm38944,602,983 - 44,640,731 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl944,604,892 - 44,640,731 (+)EnsemblGRCm38mm10GRCm38
MGSCv37944,412,975 - 44,448,814 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36944,355,893 - 44,388,101 (+)NCBIMGSCv36mm8
Celera941,863,195 - 41,899,760 (+)NCBICelera
Cytogenetic Map9A5.2NCBI
cM Map924.84NCBI
Ddx6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541219,854,785 - 19,889,426 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541219,854,785 - 19,889,422 (-)NCBIChiLan1.0ChiLan1.0
DDX6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29119,453,752 - 119,498,067 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111120,558,829 - 120,603,124 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011113,587,220 - 113,630,995 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111117,515,778 - 117,559,364 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11117,515,778 - 117,559,364 (-)Ensemblpanpan1.1panPan2
DDX6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1515,001,988 - 15,034,128 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl515,002,246 - 15,032,348 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha515,054,936 - 15,087,107 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0514,945,428 - 14,978,064 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl514,945,433 - 14,976,842 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1515,084,071 - 15,116,251 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0514,987,876 - 15,020,015 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0515,027,713 - 15,060,132 (+)NCBIUU_Cfam_GSD_1.0
Ddx6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947100,827,190 - 100,860,033 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365423,748,575 - 3,780,692 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365423,748,599 - 3,781,405 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDX6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl946,025,625 - 46,063,818 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1946,025,616 - 46,063,836 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2951,060,184 - 51,098,397 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DDX6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11110,128,450 - 110,172,383 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1110,135,471 - 110,167,463 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604315,861,815 - 15,906,220 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ddx6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478414,142,051 - 14,178,868 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478414,142,051 - 14,178,845 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ddx6
142 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:142
Count of miRNA genes:89
Interacting mature miRNAs:123
Transcripts:ENSRNOT00000017391
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83084815461290444Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1300146Rf17Renal function QTL 172.9renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)82824291273242912Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)82824291299525068Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83084815482460899Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82720571599103503Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)82950266570386295Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83084815461290444Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)82266233067662330Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84071306682925667Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815461290444Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)84186687675097878Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83555193880551938Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84071306693965294Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)82720571599103503Rat
1331744Bp217Blood pressure QTL 2173.398arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815458482492Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)82720571599103503Rat
1359021Bp271Blood pressure QTL 2711.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82664491246711092Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)84186701070386132Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)81629044461290444Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83084815482460899Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)83018886794457446Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
1331804Cm30Cardiac mass QTL 303.77443heart mass (VT:0007028)heart wet weight (CMO:0000069)82824291253961020Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83084815482460899Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)84329616998968765Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
5684993Bmd84Bone mineral density QTL 844.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)84269268450095447Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81490675159906751Rat
2302278Gluco36Glucose level QTL 364.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82950266550095447Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
631648Stl5Serum triglyceride level QTL 540.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)82720571554998217Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83646953599083736Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
2303564Gluco43Glucose level QTL 433blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82613018771130187Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83084815482460899Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)8768895552688955Rat
2303572Insul13Insulin level QTL 132blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)82613018771130187Rat

Markers in Region
RH137988  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2844,959,396 - 44,959,607 (+)MAPPERmRatBN7.2
Rnor_6.0848,953,020 - 48,953,230NCBIRnor6.0
Rnor_5.0847,571,340 - 47,571,550UniSTSRnor5.0
RGSC_v3.4847,600,951 - 47,601,161UniSTSRGSC3.4
Celera844,544,306 - 44,544,516UniSTS
RH 3.4 Map8437.5UniSTS
Cytogenetic Map8q22UniSTS
UniSTS:265520  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.084,260,633 - 4,261,122NCBIRnor5.0
Rnor_5.0135,347,411 - 5,347,833NCBIRnor5.0
Rnor_5.0135,345,324 - 5,345,813NCBIRnor5.0
Rnor_5.0824,880,842 - 24,881,319NCBIRnor5.0
RGSC_v3.4162,083,022 - 62,083,510UniSTSRGSC3.4
RGSC_v3.41322,163,646 - 22,164,135UniSTSRGSC3.4
Celera83,540,093 - 3,540,581UniSTS
Celera133,810,235 - 3,810,724UniSTS
Cytogenetic Map13p12UniSTS
Cytogenetic Map8q22UniSTS
Cytogenetic Map1q12UniSTS
UniSTS:265517  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2163,776,113 - 63,776,875 (-)MAPPERmRatBN7.2
mRatBN7.2822,204,939 - 22,205,700 (+)MAPPERmRatBN7.2
Rnor_6.084,243,475 - 4,244,236NCBIRnor6.0
Rnor_6.0824,844,522 - 24,845,282NCBIRnor6.0
Rnor_5.084,259,892 - 4,260,653UniSTSRnor5.0
Rnor_5.0824,881,300 - 24,882,060UniSTSRnor5.0
Cytogenetic Map13p12UniSTS
Cytogenetic Map1q12UniSTS
Cytogenetic Map8q22UniSTS


Expression

RNA-SEQ Expression

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

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001109292 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434369 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017595834 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063265965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC095317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213450 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ235180 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000077445   ⟹   ENSRNOP00000073900
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl844,931,974 - 44,964,405 (+)Ensembl
Rnor_6.0 Ensembl848,925,604 - 48,958,026 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000094720   ⟹   ENSRNOP00000077264
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl822,204,317 - 22,205,824 (-)Ensembl
RefSeq Acc Id: NM_001109292   ⟹   NP_001102762
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8853,828,749 - 53,861,170 (+)NCBI
mRatBN7.2844,931,974 - 44,964,405 (+)NCBI
Rnor_6.0848,925,604 - 48,958,026 (+)NCBI
Rnor_5.0847,543,067 - 47,579,713 (+)NCBI
RGSC_v3.4847,573,536 - 47,605,957 (+)RGD
Celera844,516,910 - 44,549,312 (+)RGD
Sequence:
RefSeq Acc Id: XM_006242950   ⟹   XP_006243012
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8853,828,647 - 53,864,538 (+)NCBI
mRatBN7.2844,931,872 - 44,967,773 (+)NCBI
Rnor_6.0848,925,547 - 48,961,394 (+)NCBI
Rnor_5.0847,543,067 - 47,579,713 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242951   ⟹   XP_006243013
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8853,828,474 - 53,864,538 (+)NCBI
mRatBN7.2844,931,699 - 44,967,773 (+)NCBI
Rnor_6.0848,925,363 - 48,961,394 (+)NCBI
Rnor_5.0847,543,067 - 47,579,713 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242952   ⟹   XP_006243014
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8853,828,686 - 53,864,538 (+)NCBI
mRatBN7.2844,931,911 - 44,967,773 (+)NCBI
Rnor_6.0848,925,563 - 48,961,394 (+)NCBI
Rnor_5.0847,543,067 - 47,579,713 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006242954   ⟹   XP_006243016
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8853,827,661 - 53,864,538 (+)NCBI
mRatBN7.2844,931,127 - 44,967,773 (+)NCBI
Rnor_6.0848,924,768 - 48,961,394 (+)NCBI
Rnor_5.0847,543,067 - 47,579,713 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595834   ⟹   XP_017451323
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8853,829,078 - 53,864,538 (+)NCBI
mRatBN7.2844,932,308 - 44,967,773 (+)NCBI
Rnor_6.0848,925,798 - 48,961,394 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063265965   ⟹   XP_063122035
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8853,828,876 - 53,864,538 (+)NCBI
RefSeq Acc Id: NP_001102762   ⟸   NM_001109292
- UniProtKB: D3ZD73 (UniProtKB/TrEMBL),   A6J406 (UniProtKB/TrEMBL),   A0A8I5Y7L2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243016   ⟸   XM_006242954
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006243013   ⟸   XM_006242951
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006243012   ⟸   XM_006242950
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006243014   ⟸   XM_006242952
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017451323   ⟸   XM_017595834
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000073900   ⟸   ENSRNOT00000077445
RefSeq Acc Id: XP_063122035   ⟸   XM_063265965
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000077264   ⟸   ENSRNOT00000094720
Protein Domains
DEAD-box RNA helicase Q   Helicase ATP-binding   Helicase C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZD73-F1-model_v2 AlphaFold D3ZD73 1-483 view protein structure

Transcriptome

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

Promoters
RGD ID:13695899
Promoter ID:EPDNEW_R6422
Type:initiation region
Name:Ddx6_1
Description:DEAD-box helicase 6
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_6.0848,925,604 - 48,925,664EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564560 AgrOrtholog
BioCyc Gene G2FUF-30709 BioCyc
Ensembl Genes ENSRNOG00000053932 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000063092 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000077445 ENTREZGENE
  ENSRNOT00000077445.2 UniProtKB/TrEMBL
  ENSRNOT00000094720.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro DEAD-like_N UniProtKB/TrEMBL
  DNA/RNA_helicase_C UniProtKB/TrEMBL
  DNA/RNA_helicase_DEAD/DEAH_N UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  RNA-helicase_DEAD-box_CS UniProtKB/TrEMBL
  RNA_helicase_DEAD_Q_motif UniProtKB/TrEMBL
KEGG Report rno:500988 UniProtKB/TrEMBL
NCBI Gene 500988 ENTREZGENE
PANTHER DEAD-BOX ATP-DEPENDENT RNA HELICASE 50 UniProtKB/TrEMBL
Pfam DEAD UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
PhenoGen Ddx6 PhenoGen
PROSITE DEAD_ATP_HELICASE UniProtKB/TrEMBL
  HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
  Q_MOTIF UniProtKB/TrEMBL
RatGTEx ENSRNOG00000053932 RatGTEx
  ENSRNOG00000063092 RatGTEx
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8I5Y7L2 ENTREZGENE, UniProtKB/TrEMBL
  A6J406 ENTREZGENE, UniProtKB/TrEMBL
  D3ZD73 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-13 Ddx6  DEAD-box helicase 6  Ddx6  DEAD (Asp-Glu-Ala-Asp) box helicase 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-16 Ddx6  DEAD (Asp-Glu-Ala-Asp) box helicase 6  Ddx6  DEAD (Asp-Glu-Ala-Asp) box polypeptide 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-05-27 Ddx6  DEAD (Asp-Glu-Ala-Asp) box polypeptide 6   RGD1564560  similar to RCK  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564560  similar to RCK   RGD1564560_predicted  similar to RCK (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564560_predicted  similar to RCK (predicted)  LOC500988  similar to RCK  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500988  similar to RCK      Symbol and Name status set to provisional 70820 PROVISIONAL