Ddx11 (DEAD/H-box helicase 11) - Rat Genome Database

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Gene: Ddx11 (DEAD/H-box helicase 11) Rattus norvegicus
Analyze
Symbol: Ddx11
Name: DEAD/H-box helicase 11
RGD ID: 1306675
Description: Predicted to enable several functions, including 5'-3' DNA helicase activity; ATP-dependent activity, acting on RNA; and nucleic acid binding activity. Predicted to be involved in several processes, including cellular response to bleomycin; chromosome organization; and positive regulation of nucleobase-containing compound metabolic process. Predicted to be located in several cellular components, including microtubule cytoskeleton; midbody; and nuclear lumen. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Warsaw breakage syndrome. Orthologous to several human genes including DDX11 (DEAD/H-box helicase 11); INTERACTS WITH amphetamine; C60 fullerene; doxorubicin.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ATP-dependent DNA helicase DDX11; DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11; DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11; DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (CHL1-like helicase homolog, S. cerevisiae); LOC316767; probable ATP-dependent DNA helicase DDX11; probable ATP-dependent RNA helicase DDX11
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29105,833,234 - 105,862,844 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl9105,833,504 - 105,862,550 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.09114,113,642 - 114,133,908 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9114,111,580 - 114,132,492 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09113,624,011 - 113,649,000 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49105,004,683 - 105,029,456NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.19105,109,790 - 105,239,631NCBI
Cytogenetic Map9q37NCBI
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

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9013641   PMID:10648783   PMID:16751776   PMID:17105772   PMID:17189189   PMID:18499658   PMID:18570454   PMID:20124417   PMID:23797032   PMID:26089203   PMID:26503245   PMID:27477908  


Genomics

Comparative Map Data
Ddx11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.29105,833,234 - 105,862,844 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl9105,833,504 - 105,862,550 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.09114,113,642 - 114,133,908 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9114,111,580 - 114,132,492 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.09113,624,011 - 113,649,000 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.49105,004,683 - 105,029,456NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.19105,109,790 - 105,239,631NCBI
Cytogenetic Map9q37NCBI
DDX11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381231,073,860 - 31,104,799 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1231,073,860 - 31,104,799 (+)EnsemblGRCh38hg38GRCh38
GRCh371231,226,794 - 31,257,733 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361231,118,046 - 31,148,992 (+)NCBINCBI36Build 36hg18NCBI36
Cytogenetic Map12p11.21NCBI
HuRef1230,992,012 - 31,022,870 (+)NCBIHuRef
CHM1_11231,191,725 - 31,222,687 (+)NCBICHM1_1
T2T-CHM13v2.01230,948,354 - 30,979,293 (+)NCBIT2T-CHM13v2.0
Ddx11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391766,430,508 - 66,459,169 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1766,430,515 - 66,459,169 (+)EnsemblGRCm39 Ensembl
GRCm381766,123,513 - 66,152,174 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1766,123,520 - 66,152,174 (+)EnsemblGRCm38mm10GRCm38
MGSCv371766,472,860 - 66,501,508 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361766,023,063 - 66,051,715 (+)NCBIMGSCv36mm8
Celera1770,431,796 - 70,460,387 (+)NCBICelera
Cytogenetic Map17E1.1NCBI
Ddx11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555241,932,729 - 1,957,231 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555241,932,988 - 1,957,231 (+)NCBIChiLan1.0ChiLan1.0
DDX11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Mhudiblu_PPA_v01255,176,165 - 55,207,123 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
DDX11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12742,067,845 - 42,102,699 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2742,067,898 - 42,105,870 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha274,579,582 - 4,616,009 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02742,426,383 - 42,462,807 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2742,426,426 - 42,464,432 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12742,367,678 - 42,404,085 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02742,337,315 - 42,373,743 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0273,939,763 - 3,976,206 (-)NCBIUU_Cfam_GSD_1.0
Ddx11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945108,974,809 - 108,998,353 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936606186,223 - 208,499 (+)EnsemblSpeTri2.0
SpeTri2.0NW_004936606181,457 - 209,286 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DDX11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl567,364,877 - 67,395,730 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1567,359,399 - 67,395,739 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2569,616,368 - 69,630,616 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DDX11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1119,260,206 - 9,290,308 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl119,260,239 - 9,291,162 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660891,363,928 - 1,395,863 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ddx11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624828269,843 - 302,301 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624828269,444 - 301,899 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ddx11
112 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:35
Count of miRNA genes:33
Interacting mature miRNAs:35
Transcripts:ENSRNOT00000016536
Prediction methods:Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat

Markers in Region
RH133102  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29105,861,747 - 105,862,434 (+)MAPPERmRatBN7.2
Rnor_6.09114,132,780 - 114,133,466NCBIRnor6.0
Rnor_5.09113,649,197 - 113,649,883UniSTSRnor5.0
RGSC_v3.49105,029,744 - 105,030,430UniSTSRGSC3.4
Cytogenetic Map9q37UniSTS
RH143331  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.29106,141,442 - 106,141,543 (+)MAPPERmRatBN7.2
mRatBN7.29105,862,633 - 105,862,734 (-)MAPPERmRatBN7.2
mRatBN7.29106,141,442 - 106,141,543 (-)MAPPERmRatBN7.2
mRatBN7.29105,862,633 - 105,862,734 (+)MAPPERmRatBN7.2
Rnor_6.09114,133,666 - 114,133,766NCBIRnor6.0
Rnor_6.09114,343,197 - 114,343,297NCBIRnor6.0
Rnor_5.09113,852,124 - 113,852,224UniSTSRnor5.0
Rnor_5.09113,650,083 - 113,650,183UniSTSRnor5.0
RGSC_v3.49105,030,630 - 105,030,730UniSTSRGSC3.4
RGSC_v3.49105,321,046 - 105,321,146UniSTSRGSC3.4
Celera9103,342,411 - 103,342,511UniSTS
Cytogenetic Map9q37UniSTS


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 24 26 16 12 16 45 20 34 1
Low 2 19 31 25 7 25 8 10 29 15 7 10 8
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000079340   ⟹   ENSRNOP00000074629
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl9105,833,504 - 105,862,550 (+)Ensembl
Rnor_6.0 Ensembl9114,111,580 - 114,132,492 (+)Ensembl
RefSeq Acc Id: XM_039084764   ⟹   XP_038940692
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,833,239 - 105,862,844 (+)NCBI
RefSeq Acc Id: XM_039084765   ⟹   XP_038940693
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,833,238 - 105,862,844 (+)NCBI
RefSeq Acc Id: XM_039084766   ⟹   XP_038940694
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,833,234 - 105,860,928 (+)NCBI
RefSeq Acc Id: XM_039084767   ⟹   XP_038940695
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,838,479 - 105,862,844 (+)NCBI
RefSeq Acc Id: XM_039084768   ⟹   XP_038940696
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,838,410 - 105,862,844 (+)NCBI
RefSeq Acc Id: XM_039084769   ⟹   XP_038940697
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,844,447 - 105,862,844 (+)NCBI
RefSeq Acc Id: XM_039084770   ⟹   XP_038940698
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,844,121 - 105,862,844 (+)NCBI
RefSeq Acc Id: XM_039084771   ⟹   XP_038940699
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.29105,844,447 - 105,862,844 (+)NCBI
Reference Sequences
RefSeq Acc Id: ENSRNOP00000074629   ⟸   ENSRNOT00000079340
RefSeq Acc Id: XP_038940694   ⟸   XM_039084766
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038940693   ⟸   XM_039084765
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038940692   ⟸   XM_039084764
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K8J3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038940696   ⟸   XM_039084768
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038940695   ⟸   XM_039084767
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038940698   ⟸   XM_039084770
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038940699   ⟸   XM_039084771
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038940697   ⟸   XM_039084769
- Peptide Label: isoform X6
Protein Domains
Helicase ATP-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K8J3-F1-model_v2 AlphaFold A0A0G2K8J3 1-696 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306675 AgrOrtholog
BioCyc Gene G2FUF-26453 BioCyc
Ensembl Genes ENSRNOG00000051528 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000074629 ENTREZGENE
  ENSRNOP00000074629.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000079340 ENTREZGENE
  ENSRNOT00000079340.2 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro DDX11/DDX12 UniProtKB/TrEMBL
  DEAD_2 UniProtKB/TrEMBL
  DinG/Rad3-like UniProtKB/TrEMBL
  DNA_helicase_DNA-repair_Rad3 UniProtKB/TrEMBL
  Helic_SF1/SF2_ATP-bd_DinG/Rad3 UniProtKB/TrEMBL
  Helicase-like_DEXD_c2 UniProtKB/TrEMBL
  Helicase_ATP-dep_c2 UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
NCBI Gene 316767 ENTREZGENE
PANTHER PTHR11472 UniProtKB/TrEMBL
  PTHR11472:SF41 UniProtKB/TrEMBL
Pfam DEAD_2 UniProtKB/TrEMBL
  Helicase_C_2 UniProtKB/TrEMBL
PhenoGen Ddx11 PhenoGen
PROSITE HELICASE_ATP_BIND_2 UniProtKB/TrEMBL
SMART DEXDc2 UniProtKB/TrEMBL
  HELICc2 UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
TIGRFAMs rad3 UniProtKB/TrEMBL
UniProt A0A0G2K8J3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-13 Ddx11  DEAD/H-box helicase 11  Ddx11  DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-16 Ddx11  DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11  Ddx11  DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-02 Ddx11  DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11  Ddx11  DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (CHL1-like helicase homolog, S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ddx11  DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (CHL1-like helicase homolog, S. cerevisiae)   Ddx11_predicted  DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (CHL1-like helicase homolog, S. cerevisiae) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ddx11_predicted  DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (CHL1-like helicase homolog, S. cerevisiae) (predicted)      Symbol and Name status set to approved 70820 APPROVED