Ddx39b (DExD-box helicase 39B) - Rat Genome Database

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Gene: Ddx39b (DExD-box helicase 39B) Heterocephalus glaber
Analyze
Symbol: Ddx39b
Name: DExD-box helicase 39B
RGD ID: 18904622
Description: ENCODES a protein that exhibits ATP hydrolysis activity (ortholog); ATP-dependent activity, acting on RNA (ortholog); ATP-dependent protein binding (ortholog); INVOLVED IN liver development (ortholog); mRNA export from nucleus (ortholog); mRNA splicing, via spliceosome (ortholog); PARTICIPATES IN NXF1-NXT1 export pathway; spliceosome pathway; ASSOCIATED WITH megacolon (ortholog); Neurodevelopmental Disorders (ortholog); proteasome-associated autoinflammatory syndrome 1 (ortholog); FOUND IN cytoplasm (ortholog); nuclear matrix (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DEAD-box helicase 39B; spliceosome RNA helicase DDX39B
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
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_00462475424,657,914 - 24,667,579 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475424,657,019 - 24,667,225 (+)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

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Ddx39b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475424,657,914 - 24,667,579 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475424,657,019 - 24,667,225 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
DDX39B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,530,226 - 31,542,003 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,530,219 - 31,542,448 (-)EnsemblGRCh38hg38GRCh38
GRCh37631,498,003 - 31,509,780 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,605,975 - 31,618,204 (-)NCBINCBI36Build 36hg18NCBI36
Build 34631,605,974 - 31,617,904NCBI
Celera633,096,234 - 33,108,459 (-)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef631,284,705 - 31,296,997 (-)NCBIHuRef
CHM1_1631,500,137 - 31,512,390 (-)NCBICHM1_1
T2T-CHM13v2.0631,383,322 - 31,395,095 (-)NCBIT2T-CHM13v2.0
Ddx39b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,460,722 - 35,472,683 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1735,460,722 - 35,472,683 (+)EnsemblGRCm39 Ensembl
GRCm381735,241,746 - 35,253,707 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,241,746 - 35,253,707 (+)EnsemblGRCm38mm10GRCm38
MGSCv371735,378,691 - 35,390,652 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361734,355,767 - 34,367,554 (+)NCBIMGSCv36mm8
MGSCv361734,849,922 - 34,861,736 (+)NCBIMGSCv36mm8
Celera1738,343,889 - 38,346,696 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.6NCBI
Ddx39b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,577,200 - 3,589,651 (-)NCBIGRCr8
mRatBN7.2203,547,702 - 3,585,064 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,572,056 - 3,584,996 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx204,272,550 - 4,284,961 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,634,613 - 3,647,024 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,172,085 - 4,184,507 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0204,806,103 - 4,818,600 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,806,108 - 4,818,568 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0206,886,503 - 6,898,979 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,611,128 - 3,623,578 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1203,611,355 - 3,623,754 (-)NCBI
Celera204,440,470 - 4,452,912 (+)NCBICelera
Cytogenetic Map20p12NCBI
Ddx39b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543772,835 - 84,384 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543772,835 - 84,045 (-)NCBIChiLan1.0ChiLan1.0
DDX39B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2546,007,204 - 46,019,088 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1641,968,724 - 41,980,648 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0631,191,333 - 31,203,246 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1632,081,210 - 32,093,135 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl632,081,210 - 32,092,569 (-)Ensemblpanpan1.1panPan2
DDX39B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,032,377 - 1,044,465 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl121,032,368 - 1,044,492 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,169,048 - 1,179,440 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0121,177,608 - 1,189,705 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl121,176,147 - 1,190,041 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1121,036,642 - 1,047,031 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0121,104,617 - 1,114,937 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0121,171,204 - 1,181,685 (-)NCBIUU_Cfam_GSD_1.0
Ddx39b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,580,562 - 35,597,123 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367271,968,094 - 1,980,785 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367271,968,032 - 1,980,789 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDX39B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl723,658,088 - 23,670,031 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1723,658,089 - 23,669,095 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2727,582,945 - 27,593,980 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DDX39B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11740,445,258 - 40,457,379 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1740,447,061 - 40,456,826 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604431,430,956 - 31,442,672 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000027306   ⟹   ENSHGLP00000027066
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462475424,657,914 - 24,667,579 (+)Ensembl
RefSeq Acc Id: XM_021260121   ⟹   XP_021115780
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462475424,658,569 - 24,667,225 (+)NCBI
RefSeq Acc Id: XM_021260122   ⟹   XP_021115781
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462475424,657,019 - 24,667,225 (+)NCBI
RefSeq Acc Id: XM_021260123   ⟹   XP_021115782
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462475424,658,569 - 24,666,243 (+)NCBI
Protein Sequences
Protein RefSeqs XP_021115780 (Get FASTA)   NCBI Sequence Viewer  
  XP_021115781 (Get FASTA)   NCBI Sequence Viewer  
  XP_021115782 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000027066
  ENSHGLP00100036913
GenBank Protein JAN99548 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_021115781   ⟸   XM_021260122
- Peptide Label: isoform X2
- UniProtKB: G5C3D8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021115780   ⟸   XM_021260121
- Peptide Label: isoform X1
- UniProtKB: A0A0P6J5J5 (UniProtKB/TrEMBL),   G5C3D8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021115782   ⟸   XM_021260123
- Peptide Label: isoform X3
Ensembl Acc Id: ENSHGLP00000027066   ⟸   ENSHGLT00000027306


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000019248 Ensembl, ENTREZGENE
  ENSHGLG00100011850 UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000027306 ENTREZGENE
  ENSHGLT00100045175 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro DEAD/DEAH_box_helicase_dom UniProtKB/TrEMBL
  Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  RNA_helicase_DEAD_Q_motif UniProtKB/TrEMBL
KEGG Report hgl:101719937 UniProtKB/TrEMBL
NCBI Gene Ddx39b ENTREZGENE
PANTHER ATP-DEPENDENT RNA HELICASE DBP3 UniProtKB/TrEMBL
  SPLICEOSOME RNA HELICASE DDX39B UniProtKB/TrEMBL
Pfam DEAD UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
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
UniProt A0A0P6J5J5 ENTREZGENE, UniProtKB/TrEMBL
  G5C3D8 ENTREZGENE, UniProtKB/TrEMBL