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    emb1507 U5 small nuclear ribonucleoprotein helicase [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 838690, updated on 18-Sep-2024

    Summary

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    Official Symbol
    emb1507
    Official Full Name
    U5 small nuclear ribonucleoprotein helicase
    Primary source
    TAIR:AT1G20960
    Locus tag
    AT1G20960
    See related
    Araport:AT1G20960
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    embryo defective 1507; F9H16.5; F9H16_5
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    Genomic context

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    See emb1507 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    5
    Sequence:
    Chromosome: 1; NC_003070.9 (7301599..7310271, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene Auxin efflux carrier family protein Neighboring gene cyclin-dependent kinase B2;2 Neighboring gene F-box family protein Neighboring gene Phosphofructokinase family protein Neighboring gene calponin-like domain protein Neighboring gene squamosa promoter binding protein-like 14

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. BRR2a Affects Flowering Time via FLC Splicing. Mahrez W, et al. PLoS Genet, 2016 Apr. PMID 27100965, Free PMC Article
    2. GAMETOPHYTIC FACTOR 1, involved in pre-mRNA splicing, is essential for megagametogenesis and embryogenesis in Arabidopsis. Liu M, et al. J Integr Plant Biol, 2009 Mar. PMID 19261069
    3. Recruitment of the NineTeen Complex to the activated spliceosome requires AtPRMT5. Deng X, et al. Proc Natl Acad Sci U S A, 2016 May 10. PMID 27114555, Free PMC Article
    4. Interactome of the plant-specific ESCRT-III component AtVPS2.2 in Arabidopsis thaliana. Ibl V, et al. J Proteome Res, 2012 Jan 1. PMID 22010978, Free PMC Article
    5. Arabidopsis ACINUS is O-glycosylated and regulates transcription and alternative splicing of regulators of reproductive transitions. Bi Y, et al. Nat Commun, 2021 Feb 11. PMID 33574257, Free PMC Article

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001198121.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within embryo development ending in seed dormancy NAS
    Non-traceable Author Statement
    more info
    		  
    acts_upstream_of_or_within mRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vegetative to reproductive phase transition of meristem IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleolus HDA PubMed 
    located_in nucleus HDA PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    U5 small nuclear ribonucleoprotein helicase
    NP_001185050.1
    • embryo defective 1507 (emb1507); FUNCTIONS IN: in 6 functions; INVOLVED IN: embryo development ending in seed dormancy; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: ATPase, AAA+ type, core (InterPro:IPR003593), DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), Sec63 domain (InterPro:IPR004179), Sec63 domain, subgroup (InterPro:IPR018127), DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: U5 small nuclear ribonucleoprotein helicase (TAIR:AT2G42270.1).
    NP_173520.1
    • embryo defective 1507 (emb1507); FUNCTIONS IN: in 6 functions; INVOLVED IN: embryo development ending in seed dormancy; LOCATED IN: nucleolus, membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: ATPase, AAA+ type, core (InterPro:IPR003593), DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), Sec63 domain (InterPro:IPR004179), Sec63 domain, subgroup (InterPro:IPR018127), DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: U5 small nuclear ribonucleoprotein helicase (TAIR:AT2G42270.1); Has 19827 Blast hits to 11921 proteins in 1742 species: Archae - 1778; Bacteria - 7152; Metazoa - 2915; Fungi - 2450; Plants - 1068; Viruses - 118; Other Eukaryotes - 4346 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003070.9 Reference assembly

      Range
      7301599..7310271 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_101949.5 → NP_173520.1  U5 small nuclear ribonucleoprotein helicase [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_173520.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q56Z02, Q8W577, Q9SYP1
      UniProtKB/TrEMBL
      A0A5S9VEI8
      Conserved Domains (7) summary
      smart00490
      Location:802 → 883
      HELICc; helicase superfamily c-terminal domain
      smart00487
      Location:1348 → 1547
      DEXDc; DEAD-like helicases superfamily
      smart00611
      Location:1836 → 2159
      SEC63; Domain of unknown function in Sec63p, Brr2p and other proteins
      COG1204
      Location:469 → 1265
      BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
      cd00079
      Location:1572 → 1732
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      pfam00270
      Location:506 → 685
      DEAD; DEAD/DEAH box helicase
      pfam02889
      Location:1006 → 1309
      Sec63; Sec63 Brl domain

    2. NM_001198121.1 → NP_001185050.1  U5 small nuclear ribonucleoprotein helicase [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001185050.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q56Z02, Q8W577, Q9SYP1
      UniProtKB/TrEMBL
      A0A5S9VEI8
      Conserved Domains (7) summary
      smart00490
      Location:802 → 883
      HELICc; helicase superfamily c-terminal domain
      smart00487
      Location:1348 → 1547
      DEXDc; DEAD-like helicases superfamily
      smart00611
      Location:1836 → 2159
      SEC63; Domain of unknown function in Sec63p, Brr2p and other proteins
      COG1204
      Location:469 → 1265
      BRR2; Replicative superfamily II helicase [Replication, recombination and repair]
      cd00079
      Location:1572 → 1732
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      pfam00270
      Location:506 → 685
      DEAD; DEAD/DEAH box helicase
      pfam02889
      Location:1006 → 1309
      Sec63; Sec63 Brl domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9SYP1.1

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