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 gene expression; negative regulation of RNA export from nucleus; and negative regulation of innate immune response. Predicted to act upstream of or within cytoplasmic pattern recognition receptor signaling pathway and toll-like receptor signaling pathway. Predicted to be located in cytoplasm. Predicted to be active in nucleus. 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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81941,323,465 - 41,331,413 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1941,322,836 - 41,332,306 (-)EnsemblGRCr8
mRatBN7.21924,418,743 - 24,427,422 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1924,418,114 - 24,426,954 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1931,239,843 - 31,247,791 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01931,894,255 - 31,902,203 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01934,117,090 - 34,125,037 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01924,846,530 - 24,854,886 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1924,846,938 - 24,854,953 (+)Ensemblrn6Rnor6.0
Rnor_5.01935,825,375 - 35,834,041 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41926,109,094 - 26,117,042 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1923,962,103 - 23,970,051 (-)NCBICelera
RGSC_v3.11926,113,921 - 26,121,868 (-)NCBI
Cytogenetic Map19q11NCBI
JBrowse:




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,ISO)
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)
arsenite(3-)  (ISO)
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)
DDE  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diazinon  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
dimethyl sulfoxide  (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)
GSK-J4  (ISO)
indometacin  (ISO)
inulin  (ISO)
ivermectin  (ISO)
lead diacetate  (ISO)
methapyrilene  (EXP)
methimazole  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
monobenzyl phthalate  (ISO)
Monobutylphthalate  (ISO)
monoethyl phthalate  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
okadaic acid  (ISO)
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)
triphenyl phosphate  (ISO)
triptonide  (ISO)
tungsten  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
nucleus  (IEA,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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1941,322,836 - 41,332,306 (-)EnsemblGRCr8
mRatBN7.21924,418,743 - 24,427,422 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1924,418,114 - 24,426,954 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1931,239,843 - 31,247,791 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01931,894,255 - 31,902,203 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01934,117,090 - 34,125,037 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01924,846,530 - 24,854,886 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1924,846,938 - 24,854,953 (+)Ensemblrn6Rnor6.0
Rnor_5.01935,825,375 - 35,834,041 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41926,109,094 - 26,117,042 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1923,962,103 - 23,970,051 (-)NCBICelera
RGSC_v3.11926,113,921 - 26,121,868 (-)NCBI
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 (-)Ensemblhg38GRCh38
GRCh371914,519,610 - 14,530,195 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361914,380,631 - 14,391,171 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38883,715,177 - 83,726,904 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl883,715,177 - 83,726,892 (+)Ensemblmm10GRCm38
MGSCv37886,239,098 - 86,247,247 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (-)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2048,072,141 - 48,080,443 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02048,714,927 - 48,723,227 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046249011,563,557 - 1,582,502 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Ddx39a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11716,552,819 - 16,561,469 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ddx39a
67 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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)19799775052997750Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)191922068964220689Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19799775052997750Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)19574806450748064Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
2303628Vencon9Ventilatory control QTL 90.005respiration trait (VT:0001943)minute ventilation (CMO:0000132)192318858668188586Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
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)193128753251431640Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19799775052997750Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19799775052997750Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
1554318Bmd5Bone mineral density QTL 512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)192318858668188586Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)192010930665109306Rat
1354607Gmadr1Adrenal mass QTL 15.83adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)194072709254856850Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
1354600Salc2Saline consumption QTL 29.910.001drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)194072709254856850Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat
1354633Bw28Body weight QTL 286.04body mass (VT:0001259)body weight (CMO:0000012)194072709254856850Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)193009938347207961Rat


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000045974   ⟹   ENSRNOP00000040666
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1941,323,467 - 41,332,306 (-)Ensembl
mRatBN7.2 Ensembl1924,418,743 - 24,426,954 (-)Ensembl
Rnor_6.0 Ensembl1924,846,938 - 24,854,884 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000090312   ⟹   ENSRNOP00000068949
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1941,323,467 - 41,331,413 (-)Ensembl
mRatBN7.2 Ensembl1924,418,743 - 24,426,942 (-)Ensembl
Rnor_6.0 Ensembl1924,849,356 - 24,854,953 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000096006   ⟹   ENSRNOP00000086544
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1941,323,047 - 41,331,413 (-)Ensembl
mRatBN7.2 Ensembl1924,418,325 - 24,426,942 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110443   ⟹   ENSRNOP00000077493
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1941,322,836 - 41,331,413 (-)Ensembl
mRatBN7.2 Ensembl1924,418,114 - 24,426,942 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000116099   ⟹   ENSRNOP00000082759
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1941,322,941 - 41,331,413 (-)Ensembl
mRatBN7.2 Ensembl1924,418,219 - 24,426,942 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000149968   ⟹   ENSRNOP00000110804
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1941,323,696 - 41,326,152 (-)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:
Ensembl Acc Id: ENSRNOP00000040666   ⟸   ENSRNOT00000045974
Ensembl Acc Id: ENSRNOP00000068949   ⟸   ENSRNOT00000090312
RefSeq Acc Id: XP_038953975   ⟸   XM_039098047
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QK42 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000086544   ⟸   ENSRNOT00000096006
Ensembl Acc Id: ENSRNOP00000082759   ⟸   ENSRNOT00000116099
Ensembl Acc Id: ENSRNOP00000077493   ⟸   ENSRNOT00000110443
Ensembl Acc Id: ENSRNOP00000110804   ⟸   ENSRNOT00000149968
Protein Domains
DEAD-box RNA helicase Q   Helicase ATP-binding   Helicase C-terminal

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
Ensembl Transcript ENSRNOT00000090312 ENTREZGENE
  ENSRNOT00000090312.2 UniProtKB/Swiss-Prot
  ENSRNOT00000149968 ENTREZGENE
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7132938 IMAGE-MGC_LOAD
InterPro DEAD/DEAH_box_helicase_dom UniProtKB/Swiss-Prot
  Helicase_ATP-bd UniProtKB/Swiss-Prot
  Helicase_C UniProtKB/Swiss-Prot
  P-loop_NTPase UniProtKB/Swiss-Prot
  RNA_helicase_DEAD_Q_motif UniProtKB/Swiss-Prot
KEGG Report rno:89827 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105369 IMAGE-MGC_LOAD
NCBI Gene 89827 ENTREZGENE
PANTHER ATP-DEPENDENT RNA HELICASE DBP3 UniProtKB/Swiss-Prot
Pfam DEAD UniProtKB/Swiss-Prot
  Helicase_C UniProtKB/Swiss-Prot
PhenoGen Ddx39a PhenoGen
PROSITE HELICASE_ATP_BIND_1 UniProtKB/Swiss-Prot
  HELICASE_CTER UniProtKB/Swiss-Prot
  Q_MOTIF UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000004373 RatGTEx
SMART DEXDc UniProtKB/Swiss-Prot
  HELICc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot
UniProt A0A8I5ZKB3_RAT UniProtKB/TrEMBL
  A0A8I5ZVU6_RAT UniProtKB/TrEMBL
  A0A8I6A2E4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QK42 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0M6R9_RAT 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