DDX42 (DEAD-box helicase 42) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: DDX42 (DEAD-box helicase 42) Sus scrofa
Analyze
Symbol: DDX42
Name: DEAD-box helicase 42
RGD ID: 13857127
Description: ENCODES a protein that exhibits ATP binding (inferred); helicase activity (inferred); hydrolase activity (inferred); INVOLVED IN protein localization (inferred); regulation of apoptotic process (inferred); U2-type prespliceosome assembly (inferred); PARTICIPATES IN spliceosome pathway; ASSOCIATED WITH Cachexia (ortholog); genetic disease (ortholog); myelodysplastic syndrome (ortholog); FOUND IN cytoplasm (inferred); cytosol (inferred); nuclear speck (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ATP-dependent RNA helicase DDX42; DEAD (Asp-Glu-Ala-Asp) box polypeptide 42
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1215,114,201 - 15,165,177 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11215,114,199 - 15,165,257 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21215,104,512 - 15,154,925 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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
References
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:22301074  


Genomics

Comparative Map Data
DDX42
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1215,114,201 - 15,165,177 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11215,114,199 - 15,165,257 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21215,104,512 - 15,154,925 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DDX42
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381763,773,800 - 63,819,317 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1763,773,603 - 63,819,317 (+)EnsemblGRCh38hg38GRCh38
GRCh371761,851,530 - 61,896,677 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361759,205,299 - 59,250,409 (+)NCBINCBI36Build 36hg18NCBI36
Celera1756,239,688 - 56,284,798 (+)NCBICelera
Cytogenetic Map17q23.3NCBI
HuRef1757,219,540 - 57,264,739 (+)NCBIHuRef
CHM1_11761,915,888 - 61,961,028 (+)NCBICHM1_1
T2T-CHM13v2.01764,644,531 - 64,690,152 (+)NCBIT2T-CHM13v2.0
Ddx42
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911106,107,715 - 106,139,966 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11106,107,752 - 106,139,965 (+)EnsemblGRCm39 Ensembl
GRCm3811106,216,887 - 106,249,140 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11106,216,926 - 106,249,139 (+)EnsemblGRCm38mm10GRCm38
MGSCv3711106,078,240 - 106,110,454 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611106,033,016 - 106,065,229 (+)NCBIMGSCv36mm8
Celera11117,947,360 - 117,979,572 (+)NCBICelera
Cytogenetic Map11E1NCBI
cM Map1168.89NCBI
Ddx42
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81091,648,719 - 91,680,730 (+)NCBIGRCr8
mRatBN7.21091,148,926 - 91,180,940 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1091,148,254 - 91,180,939 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1096,204,103 - 96,235,633 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01095,667,271 - 95,698,802 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01091,077,878 - 91,109,380 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01094,407,094 - 94,439,052 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1094,407,559 - 94,439,052 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01094,158,482 - 94,190,354 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41095,612,667 - 95,644,162 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11095,634,270 - 95,658,050 (+)NCBI
Celera1089,825,372 - 89,856,876 (+)NCBICelera
Cytogenetic Map10q32.1NCBI
Ddx42
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554788,010,056 - 8,041,449 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554788,009,155 - 8,052,990 (-)NCBIChiLan1.0ChiLan1.0
DDX42
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21979,946,277 - 79,990,911 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11784,763,740 - 84,808,379 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01757,854,197 - 57,898,820 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11762,998,505 - 63,043,179 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1762,998,505 - 63,045,904 (+)Ensemblpanpan1.1panPan2
DDX42
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1911,737,629 - 11,774,515 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl911,737,430 - 11,773,625 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha912,696,959 - 12,734,219 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0913,398,330 - 13,435,592 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl913,398,084 - 13,435,590 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1912,344,805 - 12,382,246 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0915,149,679 - 15,187,103 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0915,152,423 - 15,189,686 (-)NCBIUU_Cfam_GSD_1.0
Ddx42
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560214,732,081 - 14,775,919 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365414,429,657 - 4,465,099 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365414,418,743 - 4,462,513 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDX42
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11657,470,095 - 57,517,056 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1657,471,015 - 57,504,239 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607728,078,466 - 28,125,922 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ddx42
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248491,274,453 - 1,341,232 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248491,274,453 - 1,342,078 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in DDX42
1626 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 5 2 3 5 6 3 3
Low 5 2 2 17 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000018821   ⟹   ENSSSCP00000018319
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1215,114,280 - 15,165,177 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000037329   ⟹   ENSSSCP00000046875
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1215,114,201 - 15,164,861 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000048234   ⟹   ENSSSCP00000045049
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1215,114,201 - 15,164,861 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000101700   ⟹   ENSSSCP00000080477
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1215,114,202 - 15,164,859 (-)Ensembl
RefSeq Acc Id: XM_021066770   ⟹   XP_020922429
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11215,114,199 - 15,165,257 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020922429   ⟸   XM_021066770
- UniProtKB: A0A0B8RVY5 (UniProtKB/TrEMBL),   A0A480JZX3 (UniProtKB/TrEMBL),   A0A4X1T2M7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000046875   ⟸   ENSSSCT00000037329
RefSeq Acc Id: ENSSSCP00000018319   ⟸   ENSSSCT00000018821
RefSeq Acc Id: ENSSSCP00000045049   ⟸   ENSSSCT00000048234
RefSeq Acc Id: ENSSSCP00000080477   ⟸   ENSSSCT00000101700
Protein Domains
DEAD-box RNA helicase Q   Helicase ATP-binding   Helicase C-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000017289 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025037204 UniProtKB/TrEMBL
  ENSSSCG00030007028 UniProtKB/TrEMBL
  ENSSSCG00035006853 UniProtKB/TrEMBL
  ENSSSCG00045026273 UniProtKB/TrEMBL
  ENSSSCG00050071944 UniProtKB/TrEMBL
  ENSSSCG00055018462 UniProtKB/TrEMBL
  ENSSSCG00060072476 UniProtKB/TrEMBL
  ENSSSCG00065007776 UniProtKB/TrEMBL
  ENSSSCG00070005661 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000018821 ENTREZGENE
  ENSSSCT00000018821.4 UniProtKB/TrEMBL
  ENSSSCT00000037329.3 UniProtKB/TrEMBL
  ENSSSCT00000048234.3 UniProtKB/TrEMBL
  ENSSSCT00000101700.1 UniProtKB/TrEMBL
  ENSSSCT00025050623.1 UniProtKB/TrEMBL
  ENSSSCT00030009432.1 UniProtKB/TrEMBL
  ENSSSCT00035008535.1 UniProtKB/TrEMBL
  ENSSSCT00045044760.1 UniProtKB/TrEMBL
  ENSSSCT00050098195.1 UniProtKB/TrEMBL
  ENSSSCT00055038433.1 UniProtKB/TrEMBL
  ENSSSCT00060099138.1 UniProtKB/TrEMBL
  ENSSSCT00065010631.1 UniProtKB/TrEMBL
  ENSSSCT00070010880.1 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-box_CS UniProtKB/TrEMBL
  RNA_helicase_DEAD_Q_motif UniProtKB/TrEMBL
NCBI Gene DDX42 ENTREZGENE
PANTHER ATP-DEPENDENT RNA HELICASE RHLE UniProtKB/TrEMBL
  ATP-DEPENDENT RNA HELICASE RHLE-RELATED UniProtKB/TrEMBL
Pfam DEAD UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
PROSITE DEAD_ATP_HELICASE UniProtKB/TrEMBL
  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 A0A0B8RVY5 ENTREZGENE
  A0A287AMA9_PIG UniProtKB/TrEMBL
  A0A287ASN9_PIG UniProtKB/TrEMBL
  A0A480JZX3 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1T2M7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4FLW6_PIG UniProtKB/TrEMBL
  F1RSJ7_PIG UniProtKB/TrEMBL
VGNC ID VGNC:87222 ENTREZGENE