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    YBEY ybeY metalloendoribonuclease [ Homo sapiens (human) ]

    Gene ID: 54059, updated on 28-Jun-2021

    Summary

    Official Symbol
    YBEYprovided by HGNC
    Official Full Name
    ybeY metalloendoribonucleaseprovided by HGNC
    Primary source
    HGNC:HGNC:1299
    See related
    Ensembl:ENSG00000182362 MIM:617461
    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
    C21orf57
    Summary
    This gene encodes a highly conserved metalloprotein. A similar protein in bacteria acts as an endoribonuclease, and is thought to function in ribosomal RNA maturation and ribosome assembly. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2015]
    Expression
    Broad expression in testis (RPKM 8.0), thyroid (RPKM 5.5) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See YBEY in Genome Data Viewer
    Location:
    21q22.3
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    109.20210514 current GRCh38.p13 (GCF_000001405.39) 21 NC_000021.9 (46286056..46314188)
    105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (47706256..47717665)

    Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 3947 Neighboring gene MCM3AP antisense RNA 1 Neighboring gene minichromosome maintenance complex component 3 associated protein Neighboring gene Sharpr-MPRA regulatory region 1466 Neighboring gene chromosome 21 open reading frame 58 Neighboring gene pericentrin Neighboring gene ribosomal protein L18a pseudogene 2 Neighboring gene DIP2A intronic transcript 1 Neighboring gene disco interacting protein 2 homolog A

    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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • FLJ46907

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables endoribonuclease activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables metalloendopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in RNA phosphodiester bond hydrolysis, endonucleolytic IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    endoribonuclease YbeY
    Names
    putative metalloprotease C21orf57
    putative ribonuclease
    rRNA maturation factor homolog
    ybeY metallopeptidase (putative)

    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_001006114.3NP_001006114.1  endoribonuclease YbeY isoform 2

      See identical proteins and their annotated locations for NP_001006114.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks two 3' exons, and its 3' terminal exon extends past a splice site that is used in variant 1, resulting in a novel 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1. Variants 2 and 7 encode the same isoform.
      Source sequence(s)
      AK294975, AP000471, DC384882
      UniProtKB/TrEMBL
      Q8TBC8
      Conserved Domains (1) summary
      cl00402
      Location:35113
      UPF0054; Uncharacterized protein family UPF0054
    2. NM_001314022.2NP_001300951.1  endoribonuclease YbeY isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate, in-frame exon in the central coding region, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AP000471, AY040874, DC384882
      Consensus CDS
      CCDS82687.1
      UniProtKB/Swiss-Prot
      P58557
      Related
      ENSP00000340675.6, ENST00000339195.10
      Conserved Domains (1) summary
      cl00402
      Location:35106
      UPF0054; Uncharacterized protein family UPF0054
    3. NM_001314023.2NP_001300952.1  endoribonuclease YbeY isoform 4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
      Source sequence(s)
      AP000471, AY040875, DC384882
      Consensus CDS
      CCDS82685.1
      UniProtKB/Swiss-Prot
      P58557
      Related
      ENSP00000380808.1, ENST00000397694.5
      Conserved Domains (2) summary
      pfam09377
      Location:432
      SBDS_C; SBDS protein C-terminal domain
      cl00402
      Location:29104
      UPF0054; Uncharacterized protein family UPF0054
    4. NM_001314024.2NP_001300953.1  endoribonuclease YbeY isoform 5

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR, uses an alternate in-frame splice site, and lacks an alternate in-frame exon in the coding region, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.
      Source sequence(s)
      AP000471, AY040876, DC384882
      Consensus CDS
      CCDS82686.1
      UniProtKB/Swiss-Prot
      P58557
      Related
      ENSP00000380806.1, ENST00000397692.5
      Conserved Domains (1) summary
      cl00402
      Location:2761
      UPF0054; Uncharacterized protein family UPF0054
    5. NM_001314025.2NP_001300954.1  endoribonuclease YbeY isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR compared to variant 1. Variants 1 and 6 encode the same isoform (1).
      Source sequence(s)
      AK128875, AP000471, AY040874, DC384882
      Consensus CDS
      CCDS33591.1
      UniProtKB/Swiss-Prot
      P58557
      Related
      ENSP00000380813.4, ENST00000397701.9
      Conserved Domains (1) summary
      TIGR00043
      Location:35149
      TIGR00043; rRNA maturation RNase YbeY
    6. NM_001314026.2NP_001300955.1  endoribonuclease YbeY isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7) lacks two 3' exons, and its 3' terminal exon extends past a splice site that is used in variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1. Variants 2 and 7 encode the same isoform.
      Source sequence(s)
      AK294975, AY040873, BC068100, DC384882
      UniProtKB/Swiss-Prot
      P58557
      UniProtKB/TrEMBL
      Q8TBC8
      Conserved Domains (1) summary
      cl00402
      Location:35113
      UPF0054; Uncharacterized protein family UPF0054
    7. NM_058181.3NP_478061.1  endoribonuclease YbeY isoform 1

      See identical proteins and their annotated locations for NP_478061.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AP000471, AY040873, BG473705, DC384882
      Consensus CDS
      CCDS33591.1
      UniProtKB/Swiss-Prot
      P58557
      Related
      ENSP00000329614.3, ENST00000329319.7
      Conserved Domains (1) summary
      TIGR00043
      Location:35149
      TIGR00043; rRNA maturation RNase YbeY

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000021.9 Reference GRCh38.p13 Primary Assembly

      Range
      46286056..46314188
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017028394.1XP_016883883.1  endoribonuclease YbeY isoform X5

    2. XM_011529634.2XP_011527936.2  endoribonuclease YbeY isoform X4

    3. XM_005261156.4XP_005261213.2  endoribonuclease YbeY isoform X6

    4. XM_011529633.2XP_011527935.1  endoribonuclease YbeY isoform X3

      Conserved Domains (1) summary
      TIGR00043
      Location:35141
      TIGR00043; rRNA maturation RNase YbeY
    5. XM_011529631.2XP_011527933.1  endoribonuclease YbeY isoform X2

      Conserved Domains (1) summary
      TIGR00043
      Location:35141
      TIGR00043; rRNA maturation RNase YbeY
    6. XM_011529629.2XP_011527931.1  endoribonuclease YbeY isoform X1

      See identical proteins and their annotated locations for XP_011527931.1

      Conserved Domains (1) summary
      TIGR00043
      Location:35141
      TIGR00043; rRNA maturation RNase YbeY
    7. XM_017028396.1XP_016883885.1  endoribonuclease YbeY isoform X8

      UniProtKB/TrEMBL
      Q8TBC8
      Conserved Domains (1) summary
      cl00402
      Location:35113
      UPF0054; Uncharacterized protein family UPF0054
    8. XM_011529630.2XP_011527932.1  endoribonuclease YbeY isoform X1

      See identical proteins and their annotated locations for XP_011527932.1

      Conserved Domains (1) summary
      TIGR00043
      Location:35141
      TIGR00043; rRNA maturation RNase YbeY
    9. XM_011529635.2XP_011527937.1  endoribonuclease YbeY isoform X1

      See identical proteins and their annotated locations for XP_011527937.1

      Conserved Domains (1) summary
      TIGR00043
      Location:35141
      TIGR00043; rRNA maturation RNase YbeY
    10. XM_017028395.2XP_016883884.1  endoribonuclease YbeY isoform X7

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