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    Helz helicase with zinc finger [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287773, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Helzprovided by RGD
    Official Full Name
    helicase with zinc fingerprovided by RGD
    Primary source
    RGD:1307049
    See related
    EnsemblRapid:ENSRNOG00000003213 AllianceGenome:RGD:1307049
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in regulatory ncRNA-mediated post-transcriptional gene silencing. Predicted to be active in P granule and cytosol. Orthologous to human HELZ (helicase with zinc finger). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 179.1), Thymus (RPKM 162.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Helz in Genome Data Viewer
    Location:
    10q32.1
    Exon count:
    38
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (92979039..93144868)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (92479403..92645234)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (95767754..95911025)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S23, pseudogene 9 Neighboring gene proteasome 26S subunit, non-ATPase 12 Neighboring gene uncharacterized LOC120095197 Neighboring gene calcium voltage-gated channel auxiliary subunit gamma 1 Neighboring gene uncharacterized LOC134480890 Neighboring gene calcium voltage-gated channel auxiliary subunit gamma 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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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    Related articles in PubMed

    1. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    2. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
    3. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulatory ncRNA-mediated post-transcriptional gene silencing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in P granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    probable helicase with zinc finger domain
    Names
    helicase with zinc finger domain
    NP_001099318.2
    XP_006247624.1
    XP_006247627.1
    XP_008766536.1
    XP_008766537.1
    XP_008766538.1
    XP_017452634.1
    XP_038941566.1
    XP_038941568.1
    XP_038941569.1
    XP_038941570.1
    XP_038941571.1
    XP_063124827.1
    XP_063124829.1
    XP_063124830.1
    XP_063124831.1

    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)

    1. NM_001105848.2 → NP_001099318.2  probable helicase with zinc finger domain

      See identical proteins and their annotated locations for NP_001099318.2

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I6GJ42, D4ADZ6
      Related
      ENSRNOP00000038016.4, ENSRNOT00000030300.6
      Conserved Domains (5) summary
      COG1112
      Location:758 → 1072
      DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam13086
      Location:642 → 834
      AAA_11; AAA domain
      cl21455
      Location:642 → 739
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
      cl22977
      Location:841 → 1052
      UvrD_C_2; UvrD-like helicase C-terminal domain

    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

    1. NC_086028.1 Reference GRCr8

      Range
      92979039..93144868
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268757.1 → XP_063124827.1  probable helicase with zinc finger domain isoform X3

      UniProtKB/TrEMBL
      D4ADZ6

    2. XM_039085638.2 → XP_038941566.1  probable helicase with zinc finger domain isoform X1

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Conserved Domains (4) summary
      cd18808
      Location:886 → 1086
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd18077
      Location:658 → 885
      DEXXQc_HELZ; DEXXQ-box helicase domain of HELZ
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam03154
      Location:1195 → 1536
      Atrophin-1; Atrophin-1 family

    3. XM_039085642.2 → XP_038941570.1  probable helicase with zinc finger domain isoform X1

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Conserved Domains (4) summary
      cd18808
      Location:886 → 1086
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd18077
      Location:658 → 885
      DEXXQc_HELZ; DEXXQ-box helicase domain of HELZ
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam03154
      Location:1195 → 1536
      Atrophin-1; Atrophin-1 family

    4. XM_017597145.3 → XP_017452634.1  probable helicase with zinc finger domain isoform X1

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Conserved Domains (4) summary
      cd18808
      Location:886 → 1086
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd18077
      Location:658 → 885
      DEXXQc_HELZ; DEXXQ-box helicase domain of HELZ
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam03154
      Location:1195 → 1536
      Atrophin-1; Atrophin-1 family

    5. XM_039085641.2 → XP_038941569.1  probable helicase with zinc finger domain isoform X1

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Conserved Domains (4) summary
      cd18808
      Location:886 → 1086
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd18077
      Location:658 → 885
      DEXXQc_HELZ; DEXXQ-box helicase domain of HELZ
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam03154
      Location:1195 → 1536
      Atrophin-1; Atrophin-1 family

    6. XM_008768314.4 → XP_008766536.1  probable helicase with zinc finger domain isoform X1

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Conserved Domains (4) summary
      cd18808
      Location:886 → 1086
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd18077
      Location:658 → 885
      DEXXQc_HELZ; DEXXQ-box helicase domain of HELZ
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam03154
      Location:1195 → 1536
      Atrophin-1; Atrophin-1 family

    7. XM_008768315.4 → XP_008766537.1  probable helicase with zinc finger domain isoform X2

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Conserved Domains (5) summary
      COG1112
      Location:774 → 1088
      DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam13086
      Location:659 → 850
      AAA_11; AAA domain
      cl21455
      Location:658 → 845
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
      cl22977
      Location:857 → 1068
      UvrD_C_2; UvrD-like helicase C-terminal domain

    8. XM_039085643.2 → XP_038941571.1  probable helicase with zinc finger domain isoform X5

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Conserved Domains (4) summary
      cd18808
      Location:851 → 1051
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam03154
      Location:1160 → 1501
      Atrophin-1; Atrophin-1 family
      cl28899
      Location:658 → 850
      DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily

    9. XM_006247562.5 → XP_006247624.1  probable helicase with zinc finger domain isoform X3

      See identical proteins and their annotated locations for XP_006247624.1

      UniProtKB/TrEMBL
      A0A8I6GJ42, D4ADZ6
      Conserved Domains (5) summary
      COG1112
      Location:758 → 1072
      DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam13086
      Location:642 → 834
      AAA_11; AAA domain
      cl21455
      Location:642 → 739
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
      cl22977
      Location:841 → 1052
      UvrD_C_2; UvrD-like helicase C-terminal domain

    10. XM_063268760.1 → XP_063124830.1  probable helicase with zinc finger domain isoform X6

      Related
      ENSRNOP00000110700.1, ENSRNOT00000171690.1

    11. XM_006247565.5 → XP_006247627.1  probable helicase with zinc finger domain isoform X4

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Related
      ENSRNOP00000091611.2, ENSRNOT00000096377.2
      Conserved Domains (5) summary
      COG1112
      Location:757 → 1071
      DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam13086
      Location:642 → 833
      AAA_11; AAA domain
      cl21455
      Location:641 → 828
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
      cl22977
      Location:840 → 1051
      UvrD_C_2; UvrD-like helicase C-terminal domain

    12. XM_039085640.2 → XP_038941568.1  probable helicase with zinc finger domain isoform X1

      UniProtKB/TrEMBL
      A0A8I6GJ42
      Conserved Domains (4) summary
      cd18808
      Location:886 → 1086
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd18077
      Location:658 → 885
      DEXXQc_HELZ; DEXXQ-box helicase domain of HELZ
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam03154
      Location:1195 → 1536
      Atrophin-1; Atrophin-1 family

    13. XM_008768316.4 → XP_008766538.1  probable helicase with zinc finger domain isoform X3

      See identical proteins and their annotated locations for XP_008766538.1

      UniProtKB/TrEMBL
      A0A8I6GJ42, D4ADZ6
      Conserved Domains (5) summary
      COG1112
      Location:758 → 1072
      DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
      pfam00642
      Location:181 → 205
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      pfam13086
      Location:642 → 834
      AAA_11; AAA domain
      cl21455
      Location:642 → 739
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
      cl22977
      Location:841 → 1052
      UvrD_C_2; UvrD-like helicase C-terminal domain

    14. XM_063268759.1 → XP_063124829.1  probable helicase with zinc finger domain isoform X4

    15. XM_063268761.1 → XP_063124831.1  probable helicase with zinc finger domain isoform X7

    RNA

    1. XR_010055158.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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