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    etv5b ETS variant transcription factor 5b [ Danio rerio (zebrafish) ]

    Gene ID: 30452, updated on 2-Nov-2024

    Summary

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    Official Symbol
    etv5bprovided by ZNC
    Official Full Name
    ETS variant transcription factor 5bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-991228-4
    See related
    Ensembl:ENSDARG00000044511 AllianceGenome:ZFIN:ZDB-GENE-991228-4
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    erm; erm1; cb805; wu:fe05h04; wu:fj66a04
    Summary
    Enables sequence-specific DNA binding activity. Acts upstream of or within several processes, including limb morphogenesis; nervous system development; and pronephros development. Predicted to be active in nucleus. Is expressed in several structures, including brain; embryonic structure; mesoderm; neural plate; and pharyngeal arch. Orthologous to human ETV5 (ETS variant transcription factor 5). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See etv5b in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (14032019..14040161, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (13902582..13910734, complement)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene protein tyrosine phosphatase receptor type Nb Neighboring gene microRNA 153b Neighboring gene uncharacterized LOC103911185 Neighboring gene grancalcin Neighboring gene calcium channel, voltage-dependent, beta 4b subunit Neighboring gene inositol polyphosphate-4-phosphatase type I Ab

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Expression of the Ets transcription factors erm and pea3 in early zebrafish development. Münchberg SR, et al. Mech Dev, 1999 Nov. PMID 10534622
    2. Zebrafish pea3 and erm are general targets of FGF8 signaling. Roehl H, et al. Curr Biol, 2001 Apr 3. PMID 11413000
    3. Tight transcriptional control of the ETS domain factors Erm and Pea3 by Fgf signaling during early zebrafish development. Raible F, et al. Mech Dev, 2001 Sep. PMID 11520667
    4. FGF3 and FGF8 mediate a rhombomere 4 signaling activity in the zebrafish hindbrain. Maves L, et al. Development, 2002 Aug. PMID 12135921
    5. Opposing actions of histone deacetylase 1 and Notch signalling restrict expression of erm and fgf20a to hindbrain rhombomere centres during zebrafish neurogenesis. Lightman EG, et al. Int J Dev Biol, 2011. PMID 21948707

    See all (121) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Development of hypothalamic serotoninergic neurons requires Fgf signalling via the ETS-domain transcription factor Etv5b
      Title: Development of hypothalamic serotoninergic neurons requires Fgf signalling via the ETS-domain transcription factor Etv5b.
    2. Hdac1 is required for expression of erm and fgf20a in rhombomeres; Hdac1-dependent expression of these two genes is attenuated in rhombomere boundary regions by Notch signalling activity
      Title: Opposing actions of histone deacetylase 1 and Notch signalling restrict expression of erm and fgf20a to hindbrain rhombomere centres during zebrafish neurogenesis.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within hypothalamus cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within limb morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within motor neuron axon guidance IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pronephros development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of mitotic cell cycle IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ETS translocation variant 5b
    Names
    ets related protein erm

    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_001309209.1 → NP_001296138.1  ETS translocation variant 5b isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BX323042, CT594467, CT717580, EH470800
      UniProtKB/TrEMBL
      A0A2R8QC01, A0A8M1P213
      Related
      ENSDARP00000149157.1, ENSDART00000179765.1
      Conserved Domains (3) summary
      smart00413
      Location:376 → 463
      ETS; erythroblast transformation specific domain
      pfam04621
      Location:1 → 375
      ETS_PEA3_N; PEA3 subfamily ETS-domain transcription factor N terminal domain
      pfam04929
      Location:132 → 187
      Herpes_DNAp_acc; Herpes DNA replication accessory factor

    2. NM_131205.2 → NP_571280.2  ETS translocation variant 5b isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      BX323042, CT594467, CT717580, CT734048, EH470800
      UniProtKB/TrEMBL
      A0A8M1PBG6, F1QK52
      Related
      ENSDARP00000065360.4, ENSDART00000065361.5
      Conserved Domains (3) summary
      smart00413
      Location:376 → 461
      ETS; erythroblast transformation specific domain
      pfam04621
      Location:1 → 375
      ETS_PEA3_N; PEA3 subfamily ETS-domain transcription factor N terminal domain
      pfam04929
      Location:132 → 187
      Herpes_DNAp_acc; Herpes DNA replication accessory factor

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007117.7 Reference GRCz11 Primary Assembly

      Range
      14032019..14040161 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005165861.5 → XP_005165918.1  ETS translocation variant 5b isoform X2

      UniProtKB/TrEMBL
      A0A8M2BDC7
      Conserved Domains (3) summary
      smart00413
      Location:374 → 459
      ETS; erythroblast transformation specific domain
      pfam04621
      Location:1 → 373
      ETS_PEA3_N; PEA3 subfamily ETS-domain transcription factor N terminal domain
      pfam04929
      Location:132 → 187
      Herpes_DNAp_acc; Herpes DNA replication accessory factor

    2. XM_005165860.5 → XP_005165917.1  ETS translocation variant 5b isoform X1

      UniProtKB/TrEMBL
      A0A8M2BD54
      Conserved Domains (3) summary
      smart00413
      Location:374 → 461
      ETS; erythroblast transformation specific domain
      pfam04621
      Location:1 → 373
      ETS_PEA3_N; PEA3 subfamily ETS-domain transcription factor N terminal domain
      pfam04929
      Location:132 → 187
      Herpes_DNAp_acc; Herpes DNA replication accessory factor

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394628.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      174179..182390 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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    Molecular Biology Databases
    Research Materials