Ddx39a (DExD-box helicase 39A) - Rat Genome Database

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Gene: Ddx39a (DExD-box helicase 39A) Rattus norvegicus
Analyze
Symbol: Ddx39a
Name: DExD-box helicase 39A
RGD ID: 619920
Description: Predicted to enable several functions, including ATP hydrolysis activity; RNA helicase activity; and identical protein binding activity. Predicted to be involved in mRNA export from nucleus and mRNA splicing, via spliceosome. Predicted to be located in nuclear speck. Predicted to colocalize with cytoplasm. Orthologous to human DDX39A (DExD-box helicase 39A); INTERACTS WITH (+)-schisandrin B; 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ATP-dependent RNA helicase DDX39; ATP-dependent RNA helicase DDX39A; Ddx39; Ddxl; DEAD (Asp-Glu-Ala-Asp) box polypeptide 39; DEAD (Asp-Glu-Ala-Asp) box polypeptide 39A; DEAD box protein 39; DEAD-box helicase 39A; MGC105369; nuclear RNA helicase, DECD variant of DEAD box family
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81941,323,465 - 41,331,413 (-)NCBIGRCr8
mRatBN7.21924,418,743 - 24,427,422 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1924,418,114 - 24,426,954 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1931,239,843 - 31,247,791 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01931,894,255 - 31,902,203 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01934,117,090 - 34,125,037 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01924,846,530 - 24,854,886 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1924,846,938 - 24,854,953 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01935,825,375 - 35,834,041 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41926,109,094 - 26,117,042 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11926,113,921 - 26,121,868 (-)NCBI
Celera1923,962,103 - 23,970,051 (-)NCBICelera
Cytogenetic Map19q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP,ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-butoxyethanol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
butyric acid  (EXP)
caffeine  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibric acid  (EXP)
clotrimazole  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diazinon  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
disulfiram  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gentamycin  (EXP)
glafenine  (EXP)
glyphosate  (EXP)
indometacin  (ISO)
inulin  (ISO)
ivermectin  (ISO)
lead diacetate  (ISO)
methapyrilene  (EXP)
methimazole  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
phenobarbital  (ISO)
phosgene  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP)
piroxicam  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (EXP)
propiconazole  (EXP)
quercetin  (ISO)
SB 431542  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sodium fluoride  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
triptonide  (ISO)
tungsten  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
nuclear speck  (IEA,ISO)
nucleus  (ISO)

Molecular Function

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. The BAT1 gene in the MHC encodes an evolutionarily conserved putative nuclear RNA helicase of the DEAD family. Peelman LJ, etal., Genomics 1995 Mar 20;26(2):210-8.
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15047853   PMID:15489334   PMID:17312949   PMID:19946888   PMID:20844015   PMID:21168220   PMID:21859714   PMID:22658674   PMID:22681889   PMID:25416956   PMID:31505169  


Genomics

Comparative Map Data
Ddx39a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81941,323,465 - 41,331,413 (-)NCBIGRCr8
mRatBN7.21924,418,743 - 24,427,422 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1924,418,114 - 24,426,954 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1931,239,843 - 31,247,791 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01931,894,255 - 31,902,203 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01934,117,090 - 34,125,037 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01924,846,530 - 24,854,886 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1924,846,938 - 24,854,953 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01935,825,375 - 35,834,041 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41926,109,094 - 26,117,042 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11926,113,921 - 26,121,868 (-)NCBI
Celera1923,962,103 - 23,970,051 (-)NCBICelera
Cytogenetic Map19q11NCBI
DDX39A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381914,408,798 - 14,419,383 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1914,408,798 - 14,419,383 (-)EnsemblGRCh38hg38GRCh38
GRCh371914,519,610 - 14,530,195 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361914,380,631 - 14,391,171 (-)NCBINCBI36Build 36hg18NCBI36
Build 341914,380,632 - 14,391,171NCBI
Celera1914,413,761 - 14,424,296 (-)NCBICelera
Cytogenetic Map19p13.12NCBI
HuRef1914,089,708 - 14,100,251 (-)NCBIHuRef
CHM1_11914,519,618 - 14,530,192 (-)NCBICHM1_1
T2T-CHM13v2.01914,535,472 - 14,546,052 (-)NCBIT2T-CHM13v2.0
Ddx39a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39884,441,806 - 84,453,533 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl884,441,806 - 84,453,521 (+)EnsemblGRCm39 Ensembl
GRCm38883,715,177 - 83,726,904 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl883,715,177 - 83,726,892 (+)EnsemblGRCm38mm10GRCm38
MGSCv37886,239,098 - 86,247,247 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36886,605,304 - 86,613,453 (+)NCBIMGSCv36mm8
Celera888,005,381 - 88,013,523 (+)NCBICelera
Cytogenetic Map8C2NCBI
cM Map840.22NCBI
Ddx39a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541533,019,997 - 33,030,177 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541533,021,976 - 33,030,479 (-)NCBIChiLan1.0ChiLan1.0
DDX39A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22019,338,516 - 19,349,058 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11918,340,732 - 18,351,286 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01913,972,137 - 13,982,680 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11914,816,362 - 14,826,873 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1914,816,362 - 14,826,873 (-)Ensemblpanpan1.1panPan2
DDX39A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12048,196,350 - 48,204,667 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2048,196,330 - 48,204,664 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2048,072,141 - 48,080,443 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02048,714,927 - 48,723,227 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2048,714,516 - 48,723,224 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12047,926,437 - 47,934,737 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02048,353,023 - 48,361,325 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02048,595,650 - 48,603,947 (+)NCBIUU_Cfam_GSD_1.0
Ddx39a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118207,372,691 - 207,381,366 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366592,972,420 - 2,980,919 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366592,973,340 - 2,981,973 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDX39A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl264,840,347 - 64,844,970 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1264,836,040 - 64,844,996 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2265,115,723 - 65,124,516 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DDX39A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1613,054,803 - 13,065,154 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl613,052,105 - 13,065,153 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660746,588,255 - 6,598,652 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ddx39a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249011,563,557 - 1,582,536 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249011,563,557 - 1,582,502 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ddx39a
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:40
Interacting mature miRNAs:47
Transcripts:ENSRNOT00000045974
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191392640130303727Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191511459834521833Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat


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 36 41 25 19 25 1 4 66 32 41 11 1
Low 7 16 16 16 7 7 8 3 7
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000045974   ⟹   ENSRNOP00000040666
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1924,418,743 - 24,426,954 (-)Ensembl
Rnor_6.0 Ensembl1924,846,938 - 24,854,884 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090312   ⟹   ENSRNOP00000068949
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1924,418,743 - 24,426,942 (-)Ensembl
Rnor_6.0 Ensembl1924,849,356 - 24,854,953 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000096006   ⟹   ENSRNOP00000086544
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1924,418,325 - 24,426,942 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110443   ⟹   ENSRNOP00000077493
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1924,418,114 - 24,426,942 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116099   ⟹   ENSRNOP00000082759
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1924,418,219 - 24,426,942 (-)Ensembl
RefSeq Acc Id: NM_053563   ⟹   NP_446015
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,323,465 - 41,331,413 (-)NCBI
mRatBN7.21924,418,743 - 24,426,691 (-)NCBI
Rnor_6.01924,846,938 - 24,854,886 (+)NCBI
Rnor_5.01935,825,375 - 35,834,041 (+)NCBI
RGSC_v3.41926,109,094 - 26,117,042 (-)RGD
Celera1923,962,103 - 23,970,051 (-)RGD
Sequence:
RefSeq Acc Id: XM_039098047   ⟹   XP_038953975
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81941,323,465 - 41,325,744 (-)NCBI
mRatBN7.21924,418,743 - 24,427,419 (-)NCBI
RefSeq Acc Id: NP_446015   ⟸   NM_053563
- UniProtKB: O70498 (UniProtKB/Swiss-Prot),   Q5U216 (UniProtKB/Swiss-Prot),   A6IYD0 (UniProtKB/TrEMBL),   A0A8I6A2E4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000040666   ⟸   ENSRNOT00000045974
RefSeq Acc Id: ENSRNOP00000068949   ⟸   ENSRNOT00000090312
RefSeq Acc Id: XP_038953975   ⟸   XM_039098047
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QK42 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000086544   ⟸   ENSRNOT00000096006
RefSeq Acc Id: ENSRNOP00000082759   ⟸   ENSRNOT00000116099
RefSeq Acc Id: ENSRNOP00000077493   ⟸   ENSRNOT00000110443
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5U216-F1-model_v2 AlphaFold Q5U216 1-427 view protein structure

Transcriptome

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

Promoters
RGD ID:13701005
Promoter ID:EPDNEW_R11528
Type:initiation region
Name:Ddx39a_2
Description:DExD-box helicase 39A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11529  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01924,846,916 - 24,846,976EPDNEW
RGD ID:13701009
Promoter ID:EPDNEW_R11529
Type:single initiation site
Name:Ddx39a_1
Description:DExD-box helicase 39A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11528  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01924,849,303 - 24,849,363EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619920 AgrOrtholog
BioCyc Gene G2FUF-6027 BioCyc
Ensembl Genes ENSRNOG00000004373 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055008421 UniProtKB/Swiss-Prot
  ENSRNOG00060013193 UniProtKB/Swiss-Prot
  ENSRNOG00065009645 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000045974.5 UniProtKB/TrEMBL
  ENSRNOT00000090312.2 UniProtKB/Swiss-Prot
  ENSRNOT00000096006.1 UniProtKB/TrEMBL
  ENSRNOT00000110443.1 UniProtKB/TrEMBL
  ENSRNOT00000116099.1 UniProtKB/TrEMBL
  ENSRNOT00055014273 UniProtKB/Swiss-Prot
  ENSRNOT00060022528 UniProtKB/Swiss-Prot
  ENSRNOT00065015486 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7132938 IMAGE-MGC_LOAD
InterPro 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
KEGG Report rno:89827 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105369 IMAGE-MGC_LOAD
NCBI Gene 89827 ENTREZGENE
PANTHER ATP-DEPENDENT RNA HELICASE DBP3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATP-DEPENDENT RNA HELICASE DDX39A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DEAD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Helicase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ddx39a PhenoGen
PROSITE HELICASE_ATP_BIND_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Q_MOTIF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004373 RatGTEx
  ENSRNOG00055008421 RatGTEx
  ENSRNOG00060013193 RatGTEx
  ENSRNOG00065009645 RatGTEx
SMART DEXDc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HELICc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZKB3_RAT UniProtKB/TrEMBL
  A0A8I5ZVU6_RAT UniProtKB/TrEMBL
  A0A8I6A2E4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QK42 ENTREZGENE, UniProtKB/TrEMBL
  A6IYD0 ENTREZGENE, UniProtKB/TrEMBL
  DX39A_RAT UniProtKB/Swiss-Prot
  O70498 ENTREZGENE
  Q5U216 ENTREZGENE
UniProt Secondary O70498 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-10-05 Ddx39a  DExD-box helicase 39A  Ddx39a  DEAD-box helicase 39A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-01-13 Ddx39a  DEAD-box helicase 39A  Ddx39a  DEAD (Asp-Glu-Ala-Asp) box polypeptide 39A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-02 Ddx39a  DEAD (Asp-Glu-Ala-Asp) box polypeptide 39A  Ddx39  DEAD (Asp-Glu-Ala-Asp) box polypeptide 39  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Ddx39  DEAD (Asp-Glu-Ala-Asp) box polypeptide 39    nuclear RNA helicase, DECD variant of DEAD box family  Name updated 1299863 APPROVED
2004-09-10 Ddx39  nuclear RNA helicase, DECD variant of DEAD box family  Ddxl    Symbol and Name updated 1299863 APPROVED
2002-08-07 Ddxl  nuclear RNA helicase, DECD variant of DEAD box family      Symbol and Name status set to provisional 70820 PROVISIONAL