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ZXDC ZXD family zinc finger C [ Homo sapiens (human) ]

Gene ID: 79364, updated on 1-Jun-2020

Summary

Official Symbol
ZXDCprovided by HGNC
Official Full Name
ZXD family zinc finger Cprovided by HGNC
Primary source
HGNC:HGNC:28160
See related
Ensembl:ENSG00000070476 MIM:615746
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
ZXDL
Expression
Ubiquitous expression in bone marrow (RPKM 13.7), spleen (RPKM 5.6) and 25 other tissues See more
Orthologs

Genomic context

See ZXDC in Genome Data Viewer
Location:
3q21.3
Exon count:
10
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (126437348..126475938, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (126156444..126194773, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene CCDC37 divergent transcript Neighboring gene cilia and flagella associated protein 100 Neighboring gene urocanate hydratase 1 Neighboring gene chromosome 3 open reading frame 22 Neighboring gene carbohydrate sulfotransferase 13

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

  • FLJ13861, FLJ36477, FLJ37830, MGC11349, DKFZp547N024

Gene Ontology Provided by GOA

Function Evidence Code Pubs
C2H2 zinc finger domain binding IPI
Inferred from Physical Interaction
more info
PubMed 
DNA-binding transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
LRR domain binding IPI
Inferred from Physical Interaction
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
zinc finger protein ZXDC
Names
SERH2790
ZXD-like zinc finger protein

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_001040653.3NP_001035743.1  zinc finger protein ZXDC isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) 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 (2) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC024558, AF131763, BC110644, BM686637, CB268797, DQ079590, FJ980275
    Consensus CDS
    CCDS43146.1
    UniProtKB/Swiss-Prot
    Q2QGD7
    Related
    ENSP00000337694.5, ENST00000336332.5
    Conserved Domains (3) summary
    COG5048
    Location:284443
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:333352
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam17017
    Location:208353
    zf-C2H2_aberr; Aberrant zinc-finger
  2. NM_025112.5NP_079388.3  zinc finger protein ZXDC isoform 1

    See identical proteins and their annotated locations for NP_079388.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC024558, DQ079590
    Consensus CDS
    CCDS43145.1
    UniProtKB/Swiss-Prot
    Q2QGD7
    Related
    ENSP00000374359.3, ENST00000389709.8
    Conserved Domains (5) summary
    COG5048
    Location:284443
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:333352
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:208232
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:375401
    zf-H2C2_2; Zinc-finger double domain
    pfam17017
    Location:208353
    zf-C2H2_aberr; Aberrant zinc-finger

RNA

  1. NR_104249.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an internal exon and uses an alternate splice site in an internal exon, 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)
    AC024558, AL390142, BC063713, DQ079590, FJ980275

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    126437348..126475938 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011513119.2XP_011511421.1  zinc finger protein ZXDC isoform X1

    Conserved Domains (5) summary
    sd00017
    Location:333352
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:208232
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:375401
    zf-H2C2_2; Zinc-finger double domain
    pfam15909
    Location:330408
    zf-C2H2_8; C2H2-type zinc ribbon
    pfam17017
    Location:208353
    zf-C2H2_aberr; Aberrant zinc-finger
  2. XM_006713741.2XP_006713804.1  zinc finger protein ZXDC isoform X2

    Conserved Domains (5) summary
    COG5048
    Location:284443
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:333352
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:208232
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:375401
    zf-H2C2_2; Zinc-finger double domain
    pfam17017
    Location:208353
    zf-C2H2_aberr; Aberrant zinc-finger
  3. XM_005247757.3XP_005247814.1  zinc finger protein ZXDC isoform X3

    Conserved Domains (4) summary
    COG5048
    Location:284443
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:333352
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:375401
    zf-H2C2_2; Zinc-finger double domain
    pfam17017
    Location:208353
    zf-C2H2_aberr; Aberrant zinc-finger

RNA

  1. XR_924169.2 RNA Sequence

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