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

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Gene: Ddx39a (DExD-box helicase 39A) Heterocephalus glaber
Analyze
Symbol: Ddx39a
Name: DExD-box helicase 39A
RGD ID: 18901554
Description: ENCODES a protein that exhibits ATP hydrolysis activity (ortholog); identical protein binding (ortholog); INVOLVED IN mRNA export from nucleus (inferred); mRNA splicing, via spliceosome (inferred); ASSOCIATED WITH genetic disease (ortholog); FOUND IN cytoplasm (ortholog); nuclear speck (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ATP-dependent RNA helicase DDX39A; DEAD-box helicase 39A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
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
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

Biological Process

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

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
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
(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
(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


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000025873   ⟹   ENSHGLP00000025646
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046249011,563,557 - 1,582,536 (-)Ensembl
RefSeq Acc Id: XM_013068378   ⟹   XP_012923832
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046249011,563,557 - 1,575,910 (-)NCBI
RefSeq Acc Id: XM_021250413   ⟹   XP_021106072
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046249011,563,557 - 1,575,930 (-)NCBI
RefSeq Acc Id: XM_021250414   ⟹   XP_021106073
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046249011,563,557 - 1,582,502 (-)NCBI
RefSeq Acc Id: XM_021250415   ⟹   XP_021106074
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046249011,563,557 - 1,572,087 (-)NCBI
Protein Sequences
Protein RefSeqs XP_012923832 (Get FASTA)   NCBI Sequence Viewer  
  XP_021106072 (Get FASTA)   NCBI Sequence Viewer  
  XP_021106073 (Get FASTA)   NCBI Sequence Viewer  
  XP_021106074 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000025646
Reference Protein Sequences
RefSeq Acc Id: XP_021106073   ⟸   XM_021250414
- Peptide Label: isoform X1
- UniProtKB: G5BYS8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021106072   ⟸   XM_021250413
- Peptide Label: isoform X1
- UniProtKB: G5BYS8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012923832   ⟸   XM_013068378
- Peptide Label: isoform X2
- UniProtKB: G5BYS8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021106074   ⟸   XM_021250415
- Peptide Label: isoform X3
- UniProtKB: G5BYS8 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSHGLP00000025646   ⟸   ENSHGLT00000025873


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000018263 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000025873 ENTREZGENE
Gene3D-CATH P-loop containing nucleotide triphosphate hydrolases UniProtKB/TrEMBL
InterPro DEAD/DEAH_box_helicase_dom UniProtKB/TrEMBL
  Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
NCBI Gene Ddx39a ENTREZGENE
PANTHER ATP-DEPENDENT RNA HELICASE DBP3 UniProtKB/TrEMBL
  ATP-DEPENDENT RNA HELICASE DDX39A UniProtKB/TrEMBL
Pfam DEAD UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
PROSITE HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP P-loop containing nucleoside triphosphate hydrolases UniProtKB/TrEMBL
UniProt G5BYS8 ENTREZGENE, UniProtKB/TrEMBL