Ddx11 DEAD/H-box helicase 11 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ddx11provided by RGD
Official Full Name: DEAD/H-box helicase 11provided by RGD
Primary source: RGD:1306675
See related: EnsemblRapid:ENSRNOG00000051528 AllianceGenome:RGD:1306675
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: 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 part of Ctf18 RFC-like complex. 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). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Adrenal (RPKM 106.3), Thymus (RPKM 60.9) and 9 other tissues See more
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Genomic context

Location:: 9q37

Exon count:: 34

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (113204886..113309692)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (105833234..105862844)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (114113642..114133908)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

RH133102 (e-PCR)
- UniSTS:216385

RH143331 (e-PCR)
- UniSTS:232578

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 5'-3' DNA helicase activity	ISO Inferred from Sequence Orthology more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP-dependent activity, acting on DNA	ISO Inferred from Sequence Orthology more info
enables ATP-dependent activity, acting on RNA	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA helicase activity	IBA Inferred from Biological aspect of Ancestor more info
enables DNA helicase activity	ISO Inferred from Sequence Orthology more info
enables DNA replication origin binding	ISO Inferred from Sequence Orthology more info
enables G-quadruplex DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables helicase activity	ISO Inferred from Sequence Orthology more info
enables hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	IEA Inferred from Electronic Annotation more info
enables iron-sulfur cluster binding	IEA Inferred from Electronic Annotation more info
enables isomerase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables single-stranded RNA binding	ISO Inferred from Sequence Orthology more info
enables triplex DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA duplex unwinding	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA duplex unwinding	ISO Inferred from Sequence Orthology more info
involved_in G-quadruplex DNA unwinding	ISO Inferred from Sequence Orthology more info
involved_in cellular response to bleomycin	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cisplatin	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hydroxyurea	ISO Inferred from Sequence Orthology more info
involved_in establishment of sister chromatid cohesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in nucleolar chromatin organization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of double-strand break repair	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of endodeoxyribonuclease activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of sister chromatid cohesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription of nucleolar large rRNA by RNA polymerase I	ISO Inferred from Sequence Orthology more info
involved_in replication fork processing	ISO Inferred from Sequence Orthology more info
involved_in sister chromatid cohesion	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of Ctf18 RFC-like complex	ISO Inferred from Sequence Orthology more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in chromatin	ISO Inferred from Sequence Orthology more info
located_in midbody	ISO Inferred from Sequence Orthology more info
NOT part_of mitotic cohesin complex	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in spindle pole	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: probable ATP-dependent RNA helicase DDX11

Names: 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 (CHL1-like helicase homolog, S. cerevisiae); probable ATP-dependent DNA helicase DDX11

NP_001414530.1

EC 3.6.4.13

XP_038940696.1

EC 3.6.4.13

XP_038940697.1

EC 3.6.4.13

XP_038940698.1

EC 3.6.4.13

XP_038940699.1

EC 3.6.4.13

XP_063123411.1

EC 3.6.4.13

XP_063123412.1

EC 3.6.4.13

XP_063123413.1

EC 3.6.4.13

XP_063123414.1

EC 3.6.4.13

XP_063123415.1

EC 3.6.4.13

XP_063123416.1

EC 3.6.4.13

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001427601.1 → NP_001414530.1 probable ATP-dependent RNA helicase DDX11

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A0A0G2K8J3

Related

ENSRNOP00000074629.3, ENSRNOT00000079340.3

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086027.1 Reference GRCr8

Range

113204886..113309692

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063267345.1 → XP_063123415.1 probable ATP-dependent RNA helicase DDX11 isoform X6
XM_063267346.1 → XP_063123416.1 probable ATP-dependent RNA helicase DDX11 isoform X7
XM_039084770.2 → XP_038940698.1 probable ATP-dependent RNA helicase DDX11 isoform X6

Conserved Domains (1) summary

TIGR00604
Location:13 → 611

rad3; DNA repair helicase (rad3)
XM_063267342.1 → XP_063123412.1 probable ATP-dependent RNA helicase DDX11 isoform X1

Related

ENSRNOP00000111298.1, ENSRNOT00000130277.1
XM_063267341.1 → XP_063123411.1 probable ATP-dependent RNA helicase DDX11 isoform X1
XM_063267343.1 → XP_063123413.1 probable ATP-dependent RNA helicase DDX11 isoform X2
XM_063267344.1 → XP_063123414.1 probable ATP-dependent RNA helicase DDX11 isoform X3

UniProtKB/TrEMBL

A0A0G2K8J3
XM_039084768.2 → XP_038940696.1 probable ATP-dependent RNA helicase DDX11 isoform X4

Conserved Domains (1) summary

TIGR00604
Location:25 → 689

rad3; DNA repair helicase (rad3)
XM_039084769.1 → XP_038940697.1 probable ATP-dependent RNA helicase DDX11 isoform X5

Conserved Domains (1) summary

TIGR00604
Location:3 → 628

rad3; DNA repair helicase (rad3)
XM_039084771.2 → XP_038940699.1 probable ATP-dependent RNA helicase DDX11 isoform X6

Conserved Domains (1) summary

TIGR00604
Location:13 → 611

rad3; DNA repair helicase (rad3)