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

Gene ID: 287773, updated on 13-Jul-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 post-transcriptional gene silencing by RNA. Predicted to be active in P granule and cytosol. Orthologous to human HELZ (helicase with zinc finger). [provided by Alliance of Genome Resources, Apr 2022]
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
  • 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
    A0A8I6GJ42, 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

    UniProtKB/TrEMBL
    A0A8I6GJ42
    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

    UniProtKB/TrEMBL
    A0A8I6GJ42

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

    UniProtKB/TrEMBL
    A0A8I6GJ42

RNA

  1. XR_010055158.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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