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

Gene ID: 23091, updated on 8-Jul-2021

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
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
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Genomic context

See ZC3H13 in Genome Data Viewer
Location:
13q14.13
Exon count:
22
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 13 NC_000013.11 (45954465..46052794, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (46528600..46626881, 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 Apr 4 07:08:55 2018

Bibliography

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

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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_001076788.2NP_001070256.1  zinc finger CCCH domain-containing protein 13 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1), as well as variants 2 and 7-9, encodes isoform 1.
    Source sequence(s)
    AB020660, AI640521, AK074924, AL445232, AY283618, BC032425, CN262326
    UniProtKB/Swiss-Prot
    Q5T200
    UniProtKB/TrEMBL
    A0PJJ2, B3KQG8
    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  2. NM_001330564.2NP_001317493.1  zinc finger CCCH domain-containing protein 13 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2), as well as variants 1 and 7-9, encodes isoform 1.
    Source sequence(s)
    AB020660, AI640521, AK074924, AL445232, AY283618, BC032425, CN262326, CN262335, DA498537
    UniProtKB/Swiss-Prot
    Q5T200
    UniProtKB/TrEMBL
    A0PJJ2, B3KQG8
    Related
    ENSP00000503994.1, ENST00000679008.1
    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  3. NM_001330565.2NP_001317494.1  zinc finger CCCH domain-containing protein 13 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3), as well as variants 4, 5, 10, and 11, encodes isoform 2.
    Source sequence(s)
    AB020660, AI640521, AK074924, AL445232, AY283618, BC032425, CN262326, DA249612
    Consensus CDS
    CCDS81766.1
    UniProtKB/Swiss-Prot
    Q5T200
    UniProtKB/TrEMBL
    A0PJJ2, B3KQG8
  4. NM_001330566.2NP_001317495.1  zinc finger CCCH domain-containing protein 13 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4), as well as variants 3, 5, 10, and 11, encodes isoform 2.
    Source sequence(s)
    AB020660, AI640521, AK074924, AL445232, AY283618, BC032425, CN262326, DA475846, DA498537
    Consensus CDS
    CCDS81766.1
    UniProtKB/Swiss-Prot
    Q5T200
    UniProtKB/TrEMBL
    A0PJJ2, B3KQG8
  5. NM_001330567.2NP_001317496.1  zinc finger CCCH domain-containing protein 13 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5), as well as variants 3, 4, 10, and 11, encodes isoform 2.
    Source sequence(s)
    AB020660, AI640521, AK074924, AL445232, AY283618, BC032425, CN262326, DA498537
    Consensus CDS
    CCDS81766.1
    UniProtKB/Swiss-Prot
    Q5T200
    UniProtKB/TrEMBL
    A0PJJ2, B3KQG8
  6. NM_001382206.1NP_001369135.1  zinc finger CCCH domain-containing protein 13 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7), as well as variants 1, 2, 8, and 9, encodes isoform 1.
    Source sequence(s)
    AL157758, AL445232
    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  7. NM_001382207.1NP_001369136.1  zinc finger CCCH domain-containing protein 13 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8), as well as variants 1, 2, 7, and 9, encodes isoform 1.
    Source sequence(s)
    AL157758, AL445232
    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  8. NM_001382208.1NP_001369137.1  zinc finger CCCH domain-containing protein 13 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9), as well as variants 1, 2, 7, and 8, encodes isoform 1.
    Source sequence(s)
    AL157758, AL445232
    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  9. NM_001382209.1NP_001369138.1  zinc finger CCCH domain-containing protein 13 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (10), as well as variants 3, 4, 5, and 11, encodes isoform 2.
    Source sequence(s)
    AL157758, AL445232
  10. NM_001382210.1NP_001369139.1  zinc finger CCCH domain-containing protein 13 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (11), as well as variants 3, 4, 5, and 10, encodes isoform 2.
    Source sequence(s)
    AL157758, AL445232
    Related
    ENSP00000242848.4, ENST00000242848.8
  11. NM_001382211.1NP_001369140.1  zinc finger CCCH domain-containing protein 13 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (12) encodes the longest isoform (4).
    Source sequence(s)
    AL157758, AL445232
    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  12. NM_001382212.1NP_001369141.1  zinc finger CCCH domain-containing protein 13 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (13), as well as variant 14, encodes isoform 5.
    Source sequence(s)
    AL157758, AL445232
    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  13. NM_001382213.1NP_001369142.1  zinc finger CCCH domain-containing protein 13 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (14), as well as variant 13, encodes isoform 5.
    Source sequence(s)
    AL157758, AL445232
    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  14. NM_001382214.1NP_001369143.1  zinc finger CCCH domain-containing protein 13 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AL157758, AL445232
    Conserved Domains (1) summary
    PRK12678
    Location:176399
    PRK12678; transcription termination factor Rho; Provisional
  15. NM_015070.6NP_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)
    AL445232, AY283618, BC032425, CN262326
    Consensus CDS
    CCDS9400.1
    UniProtKB/Swiss-Prot
    Q5T200
    UniProtKB/TrEMBL
    A0PJJ2
    Related
    ENSP00000282007.3, ENST00000282007.7
    Conserved Domains (1) summary
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)

RNA

  1. NR_167893.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL157758, AL445232

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_000013.11 Reference GRCh38.p13 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 (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  2. 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 (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  3. 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 (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  4. XM_017020477.1XP_016875966.1  zinc finger CCCH domain-containing protein 13 isoform X3

    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  5. 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 (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  6. XM_024449333.1XP_024305101.1  zinc finger CCCH domain-containing protein 13 isoform X4

    Conserved Domains (1) summary
    PRK12678
    Location:176399
    PRK12678; transcription termination factor Rho; Provisional
  7. XM_017020478.1XP_016875967.1  zinc finger CCCH domain-containing protein 13 isoform X3

    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  8. 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 (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  9. XM_017020476.2XP_016875965.1  zinc finger CCCH domain-containing protein 13 isoform X1

    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
  10. XM_017020475.2XP_016875964.1  zinc finger CCCH domain-containing protein 13 isoform X1

    Conserved Domains (2) summary
    PRK12678
    Location:343566
    PRK12678; transcription termination factor Rho; Provisional
    pfam00642
    Location:4263
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
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