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    ZC3H13 zinc finger CCCH-type containing 13 [ Homo sapiens (human) ]

    Gene ID: 23091, updated on 12-Aug-2018

    Summary

    Official Symbol
    ZC3H13provided by HGNC
    Official Full Name
    zinc finger CCCH-type containing 13provided by HGNC
    Primary source
    HGNC:HGNC:20368
    See related
    Ensembl:ENSG00000123200 MIM:616453; Vega:OTTHUMG00000016863
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    Xio; KIAA0853
    Expression
    Ubiquitous expression in brain (RPKM 10.7), thyroid (RPKM 9.2) and 25 other tissues See more
    Orthologs

    Genomic context

    See ZC3H13 in Genome Data Viewer
    Location:
    13q14.13
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 13 NC_000013.11 (45954465..46052794, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (46528600..46626896, complement)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene siah E3 ubiquitin protein ligase family member 3 Neighboring gene uncharacterized LOC105370191 Neighboring gene CPB2 antisense RNA 1 Neighboring gene carboxypeptidase B2 Neighboring gene lymphocyte cytosolic protein 1 Neighboring gene RNA, 7SL, cytoplasmic 288, pseudogene

    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 Jun 15 11:32:44 2016

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • FLJ35669, DKFZp434D1812

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    RNA binding HDA PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    mRNA methylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of stem cell population maintenance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    RNA N6-methyladenosine methyltransferase complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    zinc finger CCCH domain-containing protein 13

    NCBI Reference Sequences (RefSeq)

    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_001076788.1NP_001070256.1  zinc finger CCCH domain-containing protein 13 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1). Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AB020660, AI640521, AK074924, AL157758, AL445232, AY283618, BC032425, CN262326
      UniProtKB/Swiss-Prot
      Q5T200
      UniProtKB/TrEMBL
      A0PJJ2, B3KQG8
      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    2. NM_001330564.1NP_001317493.1  zinc finger CCCH domain-containing protein 13 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AB020660, AI640521, AK074924, AL157758, AL445232, AY283618, BC032425, CN262326, CN262335, DA498537
      UniProtKB/Swiss-Prot
      Q5T200
      UniProtKB/TrEMBL
      A0PJJ2, B3KQG8
      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    3. NM_001330565.1NP_001317494.1  zinc finger CCCH domain-containing protein 13 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (2) has the same N- and C-termini, but is one amino acid shorter than isoform 1. Variants 3, 4, and 5 encode the same isoform (2).
      Source sequence(s)
      AB020660, AI640521, AK074924, AL157758, AL445232, AY283618, BC032425, CN262326, DA249612
      Consensus CDS
      CCDS81766.1
      UniProtKB/Swiss-Prot
      Q5T200
      UniProtKB/TrEMBL
      A0PJJ2, B3KQG8
    4. NM_001330566.1NP_001317495.1  zinc finger CCCH domain-containing protein 13 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (2) has the same N- and C-termini, but is one amino acid shorter than isoform 1. Variants 3, 4, and 5 encode the same isoform (2).
      Source sequence(s)
      AB020660, AI640521, AK074924, AL157758, AL445232, AY283618, BC032425, CN262326, DA475846, DA498537
      Consensus CDS
      CCDS81766.1
      UniProtKB/Swiss-Prot
      Q5T200
      UniProtKB/TrEMBL
      A0PJJ2, B3KQG8
    5. NM_001330567.1NP_001317496.1  zinc finger CCCH domain-containing protein 13 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (2) has the same N- and C-termini, but is one amino acid shorter than isoform 1. Variants 3, 4, and 5 encode the same isoform (2).
      Source sequence(s)
      AB020660, AI640521, AK074924, AL157758, AL445232, AY283618, BC032425, CN262326, DA498537
      Consensus CDS
      CCDS81766.1
      UniProtKB/Swiss-Prot
      Q5T200
      UniProtKB/TrEMBL
      A0PJJ2, B3KQG8
      Related
      ENSP00000242848.4, ENST00000242848.8
    6. NM_015070.5NP_055885.3  zinc finger CCCH domain-containing protein 13 isoform 3

      See identical proteins and their annotated locations for NP_055885.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) lacks several 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 (3) has a distinct C-terminus and is shorter than isoform 1.
      Source sequence(s)
      AL157758, AY283618, BC032425, CN262326
      Consensus CDS
      CCDS9400.1
      UniProtKB/Swiss-Prot
      Q5T200
      UniProtKB/TrEMBL
      A0PJJ2
      Related
      ENSP00000282007.3, OTTHUMP00000018357, ENST00000282007.7, OTTHUMT00000044790
      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000013.11 Reference GRCh38.p12 Primary Assembly

      Range
      45954465..46052794 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005266302.3XP_005266359.1  zinc finger CCCH domain-containing protein 13 isoform X1

      See identical proteins and their annotated locations for XP_005266359.1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    2. XM_017020480.1XP_016875969.1  zinc finger CCCH domain-containing protein 13 isoform X3

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    3. XM_005266306.3XP_005266363.1  zinc finger CCCH domain-containing protein 13 isoform X1

      See identical proteins and their annotated locations for XP_005266363.1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    4. XM_005266310.3XP_005266367.1  zinc finger CCCH domain-containing protein 13 isoform X3

      See identical proteins and their annotated locations for XP_005266367.1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    5. XM_005266304.3XP_005266361.1  zinc finger CCCH domain-containing protein 13 isoform X1

      See identical proteins and their annotated locations for XP_005266361.1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    6. XM_005266307.4XP_005266364.1  zinc finger CCCH domain-containing protein 13 isoform X2

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    7. XM_005266301.4XP_005266358.1  zinc finger CCCH domain-containing protein 13 isoform X1

      See identical proteins and their annotated locations for XP_005266358.1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    8. XM_017020477.1XP_016875966.1  zinc finger CCCH domain-containing protein 13 isoform X3

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    9. XM_005266303.3XP_005266360.1  zinc finger CCCH domain-containing protein 13 isoform X1

      See identical proteins and their annotated locations for XP_005266360.1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    10. XM_024449333.1XP_024305101.1  zinc finger CCCH domain-containing protein 13 isoform X4

      Conserved Domains (1) summary
      cl28310
      Location:176399
      Rho; Transcription termination factor Rho [Transcription]
    11. XM_017020478.1XP_016875967.1  zinc finger CCCH domain-containing protein 13 isoform X3

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    12. XM_005266305.3XP_005266362.1  zinc finger CCCH domain-containing protein 13 isoform X1

      See identical proteins and their annotated locations for XP_005266362.1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    13. XM_017020476.2XP_016875965.1  zinc finger CCCH domain-containing protein 13 isoform X1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    14. XM_017020479.2XP_016875968.1  zinc finger CCCH domain-containing protein 13 isoform X3

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    15. XM_017020475.2XP_016875964.1  zinc finger CCCH domain-containing protein 13 isoform X1

      Conserved Domains (1) summary
      pfam00642
      Location:4263
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
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