Dhx38 (DEAH-box helicase 38) - Rat Genome Database

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Gene: Dhx38 (DEAH-box helicase 38) Mus musculus
Analyze
Symbol: Dhx38
Name: DEAH-box helicase 38 (Ensembl:DEAH (Asp-Glu-Ala-His) box polypeptide 38)
RGD ID: 1321197
MGI Page MGI
Description: Predicted to enable 3'-5' RNA helicase activity and RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be part of catalytic step 2 spliceosome. Human ortholog(s) of this gene implicated in retinitis pigmentosa 84. Orthologous to human DHX38 (DEAH-box helicase 38).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 5730550P09Rik; AI325984; AW540902; Ddx38; DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 38; DEAH (Asp-Glu-Ala-His) box polypeptide 38; KIAA0224; mKIAA0224; Pr; pre-mRNA splicing factor 16; pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16; Prp16
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398110,274,631 - 110,292,493 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8110,274,643 - 110,292,493 (-)EnsemblGRCm39 Ensembl
GRCm388109,547,999 - 109,565,861 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8109,548,011 - 109,565,861 (-)EnsemblGRCm38mm10GRCm38
MGSCv378112,071,924 - 112,089,501 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368112,437,153 - 112,454,730 (-)NCBIMGSCv36mm8
Celera8113,773,242 - 113,790,878 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map857.09NCBI
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

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Functions of the DExD/H-box proteins in nuclear pre-mRNA splicing. Chang TH, etal., Biochim Biophys Acta. 2013 Aug;1829(8):764-74. doi: 10.1016/j.bbagrm.2013.02.006. Epub 2013 Feb 21.
2. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9798653   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11544199   PMID:12477932   PMID:12520002   PMID:15368895   PMID:15782199   PMID:16141072   PMID:16141073  
PMID:18799693   PMID:21677750   PMID:21873635   PMID:30333137  


Genomics

Comparative Map Data
Dhx38
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398110,274,631 - 110,292,493 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8110,274,643 - 110,292,493 (-)EnsemblGRCm39 Ensembl
GRCm388109,547,999 - 109,565,861 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8109,548,011 - 109,565,861 (-)EnsemblGRCm38mm10GRCm38
MGSCv378112,071,924 - 112,089,501 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368112,437,153 - 112,454,730 (-)NCBIMGSCv36mm8
Celera8113,773,242 - 113,790,878 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map857.09NCBI
DHX38
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381672,093,847 - 72,112,912 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1672,093,613 - 72,112,912 (+)EnsemblGRCh38hg38GRCh38
GRCh371672,127,746 - 72,146,811 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361670,685,116 - 70,704,312 (+)NCBINCBI36Build 36hg18NCBI36
Build 341670,685,115 - 70,704,311NCBI
Celera1656,441,736 - 56,460,927 (+)NCBICelera
Cytogenetic Map16q22.2NCBI
HuRef1657,894,449 - 57,913,646 (+)NCBIHuRef
CHM1_11673,540,965 - 73,560,161 (+)NCBICHM1_1
T2T-CHM13v2.01677,910,161 - 77,929,227 (+)NCBIT2T-CHM13v2.0
Dhx38
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81954,422,418 - 54,439,434 (-)NCBIGRCr8
mRatBN7.21937,512,893 - 37,530,135 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1937,512,891 - 37,530,140 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1944,326,164 - 44,343,154 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01944,979,492 - 44,996,482 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01947,289,199 - 47,306,189 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01942,110,291 - 42,127,540 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1942,110,327 - 42,127,542 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01952,935,420 - 52,952,669 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41939,416,281 - 39,433,530 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11939,421,164 - 39,438,151 (-)NCBI
Celera1936,917,971 - 36,935,220 (-)NCBICelera
Cytogenetic Map19q12NCBI
Dhx38
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554844,752,834 - 4,770,843 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554844,752,834 - 4,770,843 (+)NCBIChiLan1.0ChiLan1.0
DHX38
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21882,020,743 - 82,037,373 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11687,948,348 - 87,965,097 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01652,872,164 - 52,891,165 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11671,955,021 - 71,974,199 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1671,955,021 - 71,974,199 (+)Ensemblpanpan1.1panPan2
DHX38
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1577,810,853 - 77,830,020 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl577,811,041 - 77,830,015 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha577,772,505 - 77,791,748 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0578,250,159 - 78,269,404 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl578,250,397 - 78,269,404 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1578,070,301 - 78,089,544 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0577,893,070 - 77,912,098 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0578,392,435 - 78,411,679 (+)NCBIUU_Cfam_GSD_1.0
Dhx38
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934937,758,541 - 37,777,421 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647521,811,463 - 21,830,577 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647521,811,693 - 21,830,560 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DHX38
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl614,998,293 - 15,016,378 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1614,998,091 - 15,016,380 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2614,616,065 - 14,626,504 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DHX38
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1555,243,934 - 55,264,084 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl555,243,911 - 55,263,706 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604718,032,000 - 18,051,061 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dhx38
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474614,301,922 - 14,337,152 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474614,301,921 - 14,319,649 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dhx38
563 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:192
Count of miRNA genes:160
Interacting mature miRNAs:177
Transcripts:ENSMUST00000042601
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832506572117965439Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined835109930115563747Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837867154110326632Mouse
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871740461124622354Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71740461124622354Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)874126628126826739Mouse
1558890Lith18_mlithogenic gene 18 (mouse)Not determined876402145110402251Mouse
1357470Obq16_mobesity QTL 16 (mouse)Not determined876411976110412125Mouse
10412234Nhdlq14_mnon-HDL QTL 14 (mouse)Not determined876411976110412125Mouse
1301874Hdlq16_mHDL QTL 16 (mouse)Not determined876411976110412125Mouse
1301099Cbm2_mcerebellum weight 2 (mouse)Not determined879245241113245331Mouse
1301581Char2_mP. chabaudi malaria resistance QTL 2 (mouse)Not determined879808806113809031Mouse
10755530Wbc2_mwhite blood cell count 2 (mouse)881819296115819296Mouse
10755519Wbc1_mwhite blood cell count 1 (mouse)882345783116345783Mouse
1301766Desp1_mdespair 1 (mouse)Not determined885486208119486373Mouse
1302049Heal1_mwound healing/regeneration 1 (mouse)Not determined886443553120443701Mouse
1301253Skmw2_mskeletal muscle weight 2 (mouse)Not determined886443553120443701Mouse
10045619Heal14_mwound healing/regeneration 14 (mouse)Not determined886443553120443701Mouse
27226796Scvln16_msacral vertebrae length 2, 16 week (mouse)889726628130027694Mouse
1357494Obsty2_mobesity 2 (mouse)Not determined896245241129745061Mouse
12880431Fgf23lq2_mFGF23 serum level QTL 2 (mouse)897626632130127694Mouse
11252141Fdr2_mfat response to dietary restriction 2 (mouse)898390634130127694Mouse
1301481Lith11_mlithogenic gene 11 (mouse)Not determined898563635130127694Mouse
1302105Im1_mImmunoregulatory 1 (mouse)Not determined899828531130127694Mouse
1301080Sluc9_msusceptibility to lung cancer 9 (mouse)Not determined899828531130127694Mouse
4141435Fbtq3_mfemoral bone trait QTL 3 (mouse)Not determined8100965309130127694Mouse
1300560Tgl1_mtriglyceride level 1 (mouse)Not determined8102486208111650036Mouse
1300681Pgia22_mproteoglycan induced arthritis 22 (mouse)Not determined8102486208116025457Mouse
1301316Dntcs1_mdental caries susceptibility 1 (mouse)Not determined8103443553127781786Mouse
11532691Sluc38_msusceptibility to lung cancer 38 (mouse)8105033977130127694Mouse
11532692Sluc38a_msusceptibility to lung cancer 38a (mouse)8105033977130127694Mouse
14746994Manh65_mmandible shape 65 (mouse)8106489629130127694Mouse
36049780Ars12_mantibody response to SARS-CoV 12, 4 days post-rechallenge, IgM (mouse)8109426632113826632Mouse
36049781Arc1_mantibody response to CHIKV 1, day 7, IgG (mouse)8109426632113826632Mouse
36049782Arc2_mantibody response to CHIKV 2, day 7, IgM (mouse)8109426632113826632Mouse
36049783Arc3_mantibody response to CHIKV 3, day 7, FRNT50 (mouse)8109426632113826632Mouse
35673316Ari3_mantibody response to influenza 3, day 15, IgM (mouse)8109426632113826632Mouse

Markers in Region
AW540902  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388109,548,137 - 109,548,243UniSTSGRCm38
MGSCv378112,072,037 - 112,072,143UniSTSGRCm37
Celera8113,773,355 - 113,773,461UniSTS
Cytogenetic Map8D3UniSTS
Whitehead/MRC_RH81287.28UniSTS
AI325984  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm388109,548,061 - 109,548,243UniSTSGRCm38
MGSCv378112,071,961 - 112,072,143UniSTSGRCm37
Celera8113,773,279 - 113,773,461UniSTS
Cytogenetic Map8D3UniSTS
Whitehead/MRC_RH81287.08UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000042601   ⟹   ENSMUSP00000047865
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8110,274,643 - 110,292,493 (-)Ensembl
GRCm38.p6 Ensembl8109,548,011 - 109,565,861 (-)Ensembl
RefSeq Acc Id: ENSMUST00000212667
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl8110,277,691 - 110,278,756 (-)Ensembl
GRCm38.p6 Ensembl8109,551,059 - 109,552,124 (-)Ensembl
RefSeq Acc Id: NM_178380   ⟹   NP_848467
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398110,274,631 - 110,292,493 (-)NCBI
GRCm388109,547,999 - 109,565,861 (-)NCBI
MGSCv378112,071,924 - 112,089,501 (-)RGD
Celera8113,773,242 - 113,790,878 (-)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: NR_151644
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398110,274,631 - 110,292,493 (-)NCBI
GRCm388109,547,999 - 109,565,861 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006531261   ⟹   XP_006531324
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm398110,274,643 - 110,292,488 (-)NCBI
GRCm388109,548,011 - 109,565,856 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_848467   ⟸   NM_178380
- UniProtKB: Q80X98 (UniProtKB/TrEMBL),   Q6A0A1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006531324   ⟸   XM_006531261
- Peptide Label: isoform X1
- UniProtKB: Q6A0A1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000047865   ⟸   ENSMUST00000042601
Protein Domains
DEAD-box helicase OB fold   Helicase ATP-binding   Helicase C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q80X98-F1-model_v2 AlphaFold Q80X98 1-1228 view protein structure

Promoters
RGD ID:8668229
Promoter ID:EPDNEW_M12146
Type:multiple initiation site
Name:Dhx38_1
Description:Mus musculus DEAH (Asp-Glu-Ala-His) box polypeptide 38 , transcriptvariant 2, non-coding RNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm388109,565,617 - 109,565,677EPDNEW
RGD ID:6843857
Promoter ID:MM_KWN:55687
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000034159,   ENSMUST00000042601,   UC009NIK.1,   UC009NIL.1,   UC009NIM.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv368112,088,966 - 112,089,997 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1927617 AgrOrtholog
Ensembl Genes ENSMUSG00000037993 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000042601 ENTREZGENE
  ENSMUST00000042601.9 UniProtKB/TrEMBL
Gene3D-CATH 1.20.120.1080 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro DNA/RNA_helicase_DEAD/DEAH_N UniProtKB/TrEMBL
  DNA/RNA_helicase_DEAH_CS UniProtKB/TrEMBL
  DUF1605 UniProtKB/TrEMBL
  HA2_WH UniProtKB/TrEMBL
  Helicase-assoc_dom UniProtKB/TrEMBL
  Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
KEGG Report mmu:64340 UniProtKB/TrEMBL
MGD MGI:1927617 ENTREZGENE
NCBI Gene 64340 ENTREZGENE
PANTHER ATP-DEPENDENT RNA HELICASE UniProtKB/TrEMBL
  PRE-MRNA-SPLICING FACTOR ATP-DEPENDENT RNA HELICASE PRP16 UniProtKB/TrEMBL
Pfam DEAD UniProtKB/TrEMBL
  HA2 UniProtKB/TrEMBL
  HA2_C UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  OB_NTP_bind UniProtKB/TrEMBL
PhenoGen Dhx38 PhenoGen
PROSITE DEAH_ATP_HELICASE UniProtKB/TrEMBL
  HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  HA2 UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt O89064_MOUSE UniProtKB/TrEMBL
  Q6A0A1 ENTREZGENE, UniProtKB/TrEMBL
  Q80X98 ENTREZGENE, UniProtKB/TrEMBL
  Q8R1J6_MOUSE UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-07-04 Dhx38  DEAH-box helicase 38  Dhx38  DEAH (Asp-Glu-Ala-His) box polypeptide 38  Symbol and/or name change 5135510 APPROVED