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    DHX40 DEAH-box helicase 40 [ Homo sapiens (human) ]

    Gene ID: 79665, updated on 3-Dec-2024

    Summary

    Official Symbol
    DHX40provided by HGNC
    Official Full Name
    DEAH-box helicase 40provided by HGNC
    Primary source
    HGNC:HGNC:18018
    See related
    Ensembl:ENSG00000108406 MIM:607570; AllianceGenome:HGNC:18018
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    PAD; DDX40; ARG147
    Summary
    This gene encodes a member of the DExH/D box family of ATP-dependent RNA helicases that have an essential role in RNA metabolism. Alternate splicing results in multiple transcript variants. A pseudogene of this gene is found on chromosome 17.[provided by RefSeq, Oct 2009]
    Expression
    Ubiquitous expression in testis (RPKM 20.7), thyroid (RPKM 19.9) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See DHX40 in Genome Data Viewer
    Location:
    17q23.1
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (59565610..59608345)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (60434369..60477103)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (57642971..57685706)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1476 Neighboring gene uncharacterized LOC105371845 Neighboring gene uncharacterized LOC105371847 Neighboring gene RNA, U4 small nuclear 13, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:57642652-57643194 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8781 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:57695690-57696502 Neighboring gene Sharpr-MPRA regulatory region 22 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8782 Neighboring gene clathrin heavy chain Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr17:57760547-57761746 Neighboring gene Sharpr-MPRA regulatory region 12460 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12513 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:57780642-57781146 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:57781147-57781650 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:57784605-57785260 Neighboring gene peptidyl-tRNA hydrolase 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ22060, FLJ34015

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables 3'-5' RNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP-dependent H2AZ histone chaperone activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP-dependent H3-H4 histone complex chaperone activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA clamp loader activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables chromatin extrusion motor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables cohesin loader activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in chromatin looping IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    probable ATP-dependent RNA helicase DHX40
    Names
    DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 40 (RNA helicase)
    DEAH (Asp-Glu-Ala-His) box polypeptide 40
    DEAH box protein 40
    NP_001159773.1
    NP_078888.4
    XP_006722146.1
    XP_011523555.1
    XP_016880569.1
    XP_047292714.1
    XP_054173201.1
    XP_054173202.1
    XP_054173203.1
    XP_054173204.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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)

    1. NM_001166301.2NP_001159773.1  probable ATP-dependent RNA helicase DHX40 isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) has multiple differences in the coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC004167, AF319521, AF461690, AK299151, AL832510
      Consensus CDS
      CCDS54150.1
      UniProtKB/TrEMBL
      B4DR88
      Related
      ENSP00000388749.3, ENST00000425628.7
      Conserved Domains (1) summary
      COG1643
      Location:24673
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    2. NM_024612.5NP_078888.4  probable ATP-dependent RNA helicase DHX40 isoform 1

      See identical proteins and their annotated locations for NP_078888.4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AF319521, BC024187
      Consensus CDS
      CCDS11617.1
      UniProtKB/Swiss-Prot
      B3KTJ5, C9JR60, Q5JPH4, Q8IX18, Q8TC86, Q8WY53, Q9BXM1, Q9H6M9
      UniProtKB/TrEMBL
      B4DR88
      Related
      ENSP00000251241.4, ENST00000251241.9
      Conserved Domains (1) summary
      COG1643
      Location:16770
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      59565610..59608345
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006722083.4XP_006722146.1  probable ATP-dependent RNA helicase DHX40 isoform X1

      UniProtKB/TrEMBL
      B4DR88
      Conserved Domains (5) summary
      smart00490
      Location:312399
      HELICc; helicase superfamily c-terminal domain
      smart00847
      Location:448530
      HA2; Helicase associated domain (HA2) Add an annotation
      COG1643
      Location:16743
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
      cd00046
      Location:78213
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      pfam07717
      Location:564672
      OB_NTP_bind; Oligonucleotide/oligosaccharide-binding (OB)-fold
    2. XM_011525253.4XP_011523555.1  probable ATP-dependent RNA helicase DHX40 isoform X3

      Conserved Domains (5) summary
      smart00847
      Location:408496
      HA2; Helicase associated domain (HA2) Add an annotation
      COG1643
      Location:16709
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
      cd00046
      Location:78213
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      pfam07717
      Location:530638
      OB_NTP_bind; Oligonucleotide/oligosaccharide-binding (OB)-fold
      cl21455
      Location:257362
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
    3. XM_017025080.3XP_016880569.1  probable ATP-dependent RNA helicase DHX40 isoform X2

      UniProtKB/TrEMBL
      B4DR88
      Conserved Domains (1) summary
      COG1643
      Location:38694
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    4. XM_047436758.1XP_047292714.1  probable ATP-dependent RNA helicase DHX40 isoform X4

      UniProtKB/TrEMBL
      B4DR88

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      60434369..60477103
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054317226.1XP_054173201.1  probable ATP-dependent RNA helicase DHX40 isoform X1

      UniProtKB/TrEMBL
      B4DR88
    2. XM_054317228.1XP_054173203.1  probable ATP-dependent RNA helicase DHX40 isoform X3

    3. XM_054317227.1XP_054173202.1  probable ATP-dependent RNA helicase DHX40 isoform X2

      UniProtKB/TrEMBL
      B4DR88
    4. XM_054317229.1XP_054173204.1  probable ATP-dependent RNA helicase DHX40 isoform X4

      UniProtKB/TrEMBL
      B4DR88