DHX9

DHX9

DExH-box helicase 9 | RHA, DDX9, LKP

This gene encodes a member of the DEAH-containing family of RNA helicases. The encoded protein is an enzyme that catalyzes the ATP-dependent unwinding of double-stranded RNA and DNA-RNA complexes. This protein localizes to both the nucleus and the cytoplasm and functions as a transcriptional regulator. This protein may also be involved in the expression and nuclear export of retroviral RNAs. Alternate splicing results in multiple transcript variants. Pseudogenes of this gene are found on chromosomes 11 and 13.[provided by RefSeq, Feb 2010]

Member of: DE-5 DE-5.20 Developmental clusters: GC4

Biological processes 119 terms

3'-5' DNA helicase activity (GO:0043138)3'-5' DNA helicase activity (GO:0043138)3'-5' DNA helicase activity (GO:0043138)3'-5' DNA/RNA helicase activity (GO:0033679)3'-5' DNA/RNA helicase activity (GO:0033679)3'-5' RNA helicase activity (GO:0034458)ATP binding (GO:0005524)ATP binding (GO:0005524)ATP hydrolysis activity (GO:0016887)ATP hydrolysis activity (GO:0016887)ATP hydrolysis activity (GO:0016887)CRD-mediated mRNA stability complex (GO:0070937)CRD-mediated mRNA stabilization (GO:0070934)CRD-mediated mRNA stabilization (GO:0070934)DNA binding (GO:0003677)DNA helicase activity (GO:0003678)DNA helicase activity (GO:0003678)DNA replication origin binding (GO:0003688)DNA-templated viral transcription (GO:0039695)G-quadruplex unwinding activity (GO:0160225)RISC complex (GO:0016442)RISC complex assembly (GO:0070922)RISC complex binding (GO:1905172)RISC-loading complex (GO:0070578)RNA binding (GO:0003723)RNA binding (GO:0003723)RNA binding (GO:0003723)RNA helicase activity (GO:0003724)RNA helicase activity (GO:0003724)RNA helicase activity (GO:0003724)RNA helicase activity (GO:0003724)RNA helicase activity (GO:0003724)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)RNA polymerase II complex binding (GO:0000993)RNA polymerase II-specific DNA-binding transcription factor binding (GO:0061629)RNA polymerase binding (GO:0070063)RNA polymerase binding (GO:0070063)RNA stem-loop binding (GO:0035613)actin cytoskeleton (GO:0015629)alternative mRNA splicing, via spliceosome (GO:0000380)cellular response to exogenous dsRNA (GO:0071360)centrosome (GO:0005813)centrosome (GO:0005813)chromatin DNA binding (GO:0031490)chromatin organization (GO:0006325)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasmic ribonucleoprotein granule (GO:0036464)cytosol (GO:0005829)cytosol (GO:0005829)double-stranded DNA binding (GO:0003690)double-stranded RNA binding (GO:0003725)double-stranded RNA binding (GO:0003725)importin-alpha family protein binding (GO:0061676)mRNA binding (GO:0003729)mRNA binding (GO:0003729)membrane (GO:0016020)miRNA-mediated post-transcriptional gene silencing (GO:0035195)negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900152)nuclear body (GO:0016604)nuclear stress granule (GO:0097165)nuclear stress granule (GO:0097165)nucleic acid binding (GO:0003676)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleoside triphosphate diphosphatase activity (GO:0047429)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)osteoblast differentiation (GO:0001649)perichromatin fibrils (GO:0005726)positive regulation of DNA repair (GO:0045739)positive regulation of DNA replication (GO:0045740)positive regulation of RNA export from nucleus (GO:0046833)positive regulation of cytoplasmic translation (GO:2000767)positive regulation of cytoplasmic translation (GO:2000767)positive regulation of fibroblast proliferation (GO:0048146)positive regulation of inflammatory response (GO:0050729)positive regulation of innate immune response (GO:0045089)positive regulation of interferon-alpha production (GO:0032727)positive regulation of interferon-beta production (GO:0032728)positive regulation of interleukin-18 production (GO:0032741)positive regulation of interleukin-6 production (GO:0032755)positive regulation of response to cytokine stimulus (GO:0060760)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of tumor necrosis factor production (GO:0032760)positive regulation of viral transcription (GO:0050434)promoter-specific chromatin binding (GO:1990841)protein binding (GO:0005515)protein localization to cytoplasmic stress granule (GO:1903608)protein-containing complex (GO:0032991)protein-containing complex assembly (GO:0065003)pyroptotic inflammatory response (GO:0070269)regulation of cytoplasmic translation (GO:2000765)regulation of defense response to virus by host (GO:0050691)regulation of mRNA processing (GO:0050684)regulation of mRNA processing (GO:0050684)regulation of transcription by RNA polymerase II (GO:0006357)regulatory region RNA binding (GO:0001069)regulatory region RNA binding (GO:0001069)ribonucleoprotein complex (GO:1990904)ribonucleoprotein complex (GO:1990904)ribonucleoprotein complex (GO:1990904)ribonucleoside triphosphate phosphatase activity (GO:0017111)ribosome binding (GO:0043022)sequence-specific mRNA binding (GO:1990825)siRNA binding (GO:0035197)single-stranded 3'-5' DNA helicase activity (GO:1990518)single-stranded DNA binding (GO:0003697)single-stranded RNA binding (GO:0003727)transcription coactivator activity (GO:0003713)transcription coregulator activity (GO:0003712)triplex DNA binding (GO:0045142)

Expression (TPM)

TFs regulating DHX9 0 TFs

Transcription factors with Perturb-seq knockdown data for DHX9. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = DHX9 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

TF	Mean coef	Binding	Outlier	TF→Gene link

Rows:

Elements linked to DHX9

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of DHX9, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Accessibility	Element	Dist. to TSS	Link type	TFs
	chr1:182,603,748–182,604,847	234.9 kb	Distal (>10kb) Multiome HiCAR	617
	chr1:182,611,551–182,612,259	227.4 kb	Distal (>10kb) Multiome	222
	chr1:182,614,397–182,617,189	224.3 kb	Distal (>10kb) Multiome	882
	chr1:182,699,357–182,700,582	139.3 kb	Distal (>10kb) Multiome	237
	chr1:182,789,198–182,790,098	49.7 kb	Distal (>10kb) Multiome	771
	chr1:182,806,097–182,806,606	32.9 kb	Distal (>10kb) Multiome	157
	chr1:182,838,565–182,840,149	21 bp	At TSS Multiome	1015
	chr1:182,957,895–182,958,423	118.7 kb	Distal (>10kb) Multiome	75
	chr1:183,022,283–183,024,397	183.9 kb	Distal (>10kb) Multiome	950

Genome Browser

Genomic view of the DHX9 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.