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Zc3h14 zinc finger CCCH type containing 14 [ Mus musculus (house mouse) ]

Gene ID: 75553, updated on 2-Nov-2024

Summary

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Official Symbol
Zc3h14provided by MGI
Official Full Name
zinc finger CCCH type containing 14provided by MGI
Primary source
MGI:MGI:1919824
See related
Ensembl:ENSMUSG00000021012 AllianceGenome:MGI:1919824
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
1010001P15Rik; 1700016A15Rik; 2700069A02Rik
Summary
Predicted to enable poly(A) binding activity. Predicted to be involved in regulation of mRNA stability. Located in nuclear speck. Is expressed in cerebral cortex. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 56. Orthologous to human ZC3H14 (zinc finger CCCH-type containing 14). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in testis adult (RPKM 36.2), CNS E11.5 (RPKM 18.5) and 24 other tissues See more
Orthologs
human all
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Genomic context

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See Zc3h14 in Genome Data Viewer
Location:
12 E; 12 49.88 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (98708276..98754033)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (98742017..98787774)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene spermatogenesis associated 7 Neighboring gene STARR-seq mESC enhancer starr_33000 Neighboring gene protein tyrosine phosphatase, non-receptor type 21 Neighboring gene STARR-positive B cell enhancer ABC_E9861 Neighboring gene echinoderm microtubule associated protein like 5 Neighboring gene predicted gene, 35463 Neighboring gene STARR-seq mESC enhancer starr_33001 Neighboring gene STARR-seq mESC enhancer starr_33002 Neighboring gene STARR-positive B cell enhancer ABC_E5348 Neighboring gene tetratricopeptide repeat domain 8

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Activity of the poly(A) binding protein MSUT2 determines susceptibility to pathological tau in the mammalian brain. Wheeler JM, et al. Sci Transl Med, 2019 Dec 18. PMID 31852801, Free PMC Article
  2. The polyadenosine RNA-binding protein ZC3H14 interacts with the THO complex and coordinately regulates the processing of neuronal transcripts. Morris KJ, et al. Nucleic Acids Res, 2018 Jul 27. PMID 29912477, Free PMC Article
  3. The RNA-binding protein, ZC3H14, is required for proper poly(A) tail length control, expression of synaptic proteins, and brain function in mice. Rha J, et al. Hum Mol Genet, 2017 Oct 1. PMID 28666327, Free PMC Article
  4. The RNA-binding protein Nab2 regulates the proteome of the developing Drosophila brain. Corgiat EB, et al. J Biol Chem, 2021 Jul. PMID 34139237, Free PMC Article
  5. Splice variants of the human ZC3H14 gene generate multiple isoforms of a zinc finger polyadenosine RNA binding protein. Leung SW, et al. Gene, 2009 Jun 15. PMID 19303045, Free PMC Article

See all (32) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Identification of nuclear ZC3H14-interacting proteins from the brain and links the functions of ZC3H14 and the THO complex in the processing of RNA.
    Title: The polyadenosine RNA-binding protein ZC3H14 interacts with the THO complex and coordinately regulates the processing of neuronal transcripts.
  2. Among the proteins increased in the hippocampi of Zc3h14Deltaex13/Deltaex13 mice compared to control are key synaptic proteins including CaMK2a. This newly generated mouse serves as a tool to study the function of ZC3H14 in vivo.
    Title: The RNA-binding protein, ZC3H14, is required for proper poly(A) tail length control, expression of synaptic proteins, and brain function in mice.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (3)  1 citation

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables poly(A) binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables poly(A) binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of mRNA stability IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of mRNA stability IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in axon cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in axon cytoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in dendrite cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in dendrite cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear speck IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of ribonucleoprotein complex IEA
Inferred from Electronic Annotation
more info
  
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
zinc finger CCCH domain-containing protein 14

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_001008506.2 → NP_001008506.2  zinc finger CCCH domain-containing protein 14 isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two alternate exons in the central coding region, compared to variant 1. The resulting isoform (b) lacks an internal segment, compared to isoform a.
    Source sequence(s)
    AC159193, AK048046, AK076066, AK160937
    Consensus CDS
    CCDS26099.1
    UniProtKB/Swiss-Prot
    Q8BJ05
    Related
    ENSMUSP00000105731.3, ENSMUST00000110104.10
    Conserved Domains (1) summary
    pfam14608
    Location:490 → 508
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  2. NM_001160107.1 → NP_001153579.1  zinc finger CCCH domain-containing protein 14 isoform c

    See identical proteins and their annotated locations for NP_001153579.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks three alternate exons in the central coding region, compared to variant 1. The resulting isoform (c) lacks an internal segment, compared to isoform a.
    Source sequence(s)
    AC159193, AK048046, AK076066, AK160937
    Consensus CDS
    CCDS49138.1
    UniProtKB/Swiss-Prot
    Q8BJ05
    Related
    ENSMUSP00000055879.10, ENSMUST00000057000.17
    Conserved Domains (1) summary
    pfam14608
    Location:525 → 541
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  3. NM_001160108.1 → NP_001153580.1  zinc finger CCCH domain-containing protein 14 isoform d

    See identical proteins and their annotated locations for NP_001153580.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) represents use of an alternate promoter and lacks two alternate exons in the central coding region, compared to variant 1. The resulting isoform (d) has a shorter and distinct N-terminus and lacks an internal segment, compared to isoform a.
    Source sequence(s)
    AC159193, AK006009, AK160937, BU936221
    Consensus CDS
    CCDS49139.1
    UniProtKB/Swiss-Prot
    Q8BJ05
    Related
    ENSMUSP00000021399.8, ENSMUST00000021399.9
    Conserved Domains (1) summary
    COG5084
    Location:179 → 273
    YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

  4. NM_001364400.1 → NP_001351329.1  zinc finger CCCH domain-containing protein 14 isoform e

    Status: VALIDATED

    Source sequence(s)
    AC159193
    Conserved Domains (1) summary
    pfam14608
    Location:677 → 693
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  5. NM_001364401.1 → NP_001351330.1  zinc finger CCCH domain-containing protein 14 isoform f

    Status: VALIDATED

    Source sequence(s)
    AC159193
    Conserved Domains (1) summary
    pfam14608
    Location:656 → 672
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  6. NM_001364402.1 → NP_001351331.1  zinc finger CCCH domain-containing protein 14 isoform g

    Status: VALIDATED

    Source sequence(s)
    AC159193
    Conserved Domains (1) summary
    pfam14608
    Location:546 → 562
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  7. NM_001364403.1 → NP_001351332.1  zinc finger CCCH domain-containing protein 14 isoform h

    Status: VALIDATED

    Source sequence(s)
    AC159193
    Conserved Domains (1) summary
    pfam14608
    Location:526 → 542
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  8. NM_001364404.1 → NP_001351333.1  zinc finger CCCH domain-containing protein 14 isoform i

    Status: VALIDATED

    Source sequence(s)
    AC159193
    Conserved Domains (1) summary
    pfam14608
    Location:395 → 411
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  9. NM_001364405.1 → NP_001351334.1  zinc finger CCCH domain-containing protein 14 isoform j

    Status: VALIDATED

    Source sequence(s)
    AC159193
    Conserved Domains (1) summary
    pfam14608
    Location:370 → 386
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  10. NM_029334.2 → NP_083610.2  zinc finger CCCH domain-containing protein 14 isoform a

    See identical proteins and their annotated locations for NP_083610.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AC159193, AK048046, AK076066, AK160937
    Consensus CDS
    CCDS26100.1
    UniProtKB/Swiss-Prot
    A0PJE7, A1A4A9, Q3TU70, Q8BIY8, Q8BJ05, Q8R3Q8, Q8R3R2, Q9DAA8
    Related
    ENSMUSP00000105732.3, ENSMUST00000110105.10
    Conserved Domains (1) summary
    pfam14608
    Location:621 → 639
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

RNA

  1. NR_027648.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an alternate exon in the 5' coding region and three alternate exons in the central coding region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC159193, AK076066, AK160937

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000078.7 Reference GRCm39 C57BL/6J

    Range
    98708276..98754033
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006516327.4 → XP_006516390.3  zinc finger CCCH domain-containing protein 14 isoform X1

    Conserved Domains (1) summary
    pfam14608
    Location:739 → 755
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  2. XM_006516328.4 → XP_006516391.3  zinc finger CCCH domain-containing protein 14 isoform X2

    Conserved Domains (1) summary
    pfam14608
    Location:714 → 730
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  3. XM_006516330.4 → XP_006516393.3  zinc finger CCCH domain-containing protein 14 isoform X4

    Conserved Domains (1) summary
    pfam14608
    Location:583 → 599
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  4. XM_006516329.4 → XP_006516392.3  zinc finger CCCH domain-containing protein 14 isoform X3

    Conserved Domains (1) summary
    pfam14608
    Location:608 → 624
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  5. XM_030246973.2 → XP_030102833.1  zinc finger CCCH domain-containing protein 14 isoform X5

    Conserved Domains (1) summary
    pfam14608
    Location:501 → 517
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

  6. XM_006516333.3 → XP_006516396.1  zinc finger CCCH domain-containing protein 14 isoform X6

    Conserved Domains (1) summary
    pfam14608
    Location:386 → 402
    zf-CCCH_2; RNA-binding, Nab2-type zinc finger

RNA

  1. XR_001780498.2 RNA Sequence

  2. XR_001780499.3 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BJ05.1 GenPept UniProtKB/Swiss-Prot:Q8BJ05

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