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Aliases for NKX2-4 Gene

Aliases for NKX2-4 Gene

  • NK2 Homeobox 4 2 3 5
  • NKX2D 3 4
  • NK2 Transcription Factor Related, Locus 4 (Drosophila) 2
  • NK2 Transcription Factor Related, Locus 4 3
  • NK2 Transcription Factor Homolog D 3
  • Homeobox Protein NK-2 Homolog D 4
  • NK-2 (Drosophila) Homolog D 2
  • Homeobox Protein Nkx-2.4 3
  • NKX2.4 3

External Ids for NKX2-4 Gene

Previous HGNC Symbols for NKX2-4 Gene

  • NKX2D

Previous GeneCards Identifiers for NKX2-4 Gene

  • GC20U990020
  • GC20M021324

Summaries for NKX2-4 Gene

GeneCards Summary for NKX2-4 Gene

NKX2-4 (NK2 Homeobox 4) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include sequence-specific DNA binding. An important paralog of this gene is NKX2-1.

UniProtKB/Swiss-Prot for NKX2-4 Gene

  • Probable transcription factor.

Additional gene information for NKX2-4 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NKX2-4 Gene

Genomics for NKX2-4 Gene

GeneHancer (GH) Regulatory Elements for NKX2-4 Gene

Promoters and enhancers for NKX2-4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH20I021090 Enhancer 0.9 UCNEbase Ensembl 11.1 +307.7 307669 0.3 ZNF335 MEF2D MEIS2 SOX6 PRDM4 SP7 ENSG00000283405 LOC105372558 NKX2-4 LINC00237
GH20I021091 Enhancer 0.7 ENCODE 11.1 +307.2 307173 0.2 ZSCAN18 ZNF133 INSM2 FEZF1 ZEB1 HIC1 ZNF335 ZNF366 SCRT2 ZNF391 ENSG00000283405 LOC105372558 NKX2-4 LINC00237
GH20I021360 Enhancer 0.6 Ensembl ENCODE 11.1 +36.8 36778 0.9 PRDM6 ARNT CEBPB LOC105372558 NKX2-4 GC20M021329 GC20M021330 GC20P021326 XRN2
GH20I021521 Enhancer 1 FANTOM5 dbSUPER 4.4 -123.3 -123272 0.6 CTCF SUZ12 SIN3A ZNF335 ZFHX2 GLIS2 PATZ1 EGR2 EZH2 ZBTB10 NKX2-2 PAX1 NKX2-4 KIZ GC20P021523 GC20P021326
GH20I021214 Enhancer 0.3 ENCODE 10 +183.6 183640 0.7 SP1 LOC105372558 NKX2-4 KIZ-AS1 RPS15AP1 KIZ
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around NKX2-4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NKX2-4 gene promoter:

Genomic Locations for NKX2-4 Gene

Genomic Locations for NKX2-4 Gene
chr20:21,395,367-21,398,028
(GRCh38/hg38)
Size:
2,662 bases
Orientation:
Minus strand
chr20:21,376,005-21,378,666
(GRCh37/hg19)

Genomic View for NKX2-4 Gene

Genes around NKX2-4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NKX2-4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NKX2-4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NKX2-4 Gene

Proteins for NKX2-4 Gene

  • Protein details for NKX2-4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H2Z4-NKX24_HUMAN
    Recommended name:
    Homeobox protein Nkx-2.4
    Protein Accession:
    Q9H2Z4
    Secondary Accessions:
    • Q5VZV8

    Protein attributes for NKX2-4 Gene

    Size:
    354 amino acids
    Molecular mass:
    36179 Da
    Quaternary structure:
    No Data Available

neXtProt entry for NKX2-4 Gene

Post-translational modifications for NKX2-4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for NKX2-4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NKX2-4 Gene

Domains & Families for NKX2-4 Gene

Gene Families for NKX2-4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for NKX2-4 Gene

Suggested Antigen Peptide Sequences for NKX2-4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H2Z4

UniProtKB/Swiss-Prot:

NKX24_HUMAN :
  • Belongs to the NK-2 homeobox family.
Family:
  • Belongs to the NK-2 homeobox family.
genes like me logo Genes that share domains with NKX2-4: view

Function for NKX2-4 Gene

Molecular function for NKX2-4 Gene

UniProtKB/Swiss-Prot Function:
Probable transcription factor.

Gene Ontology (GO) - Molecular Function for NKX2-4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0003677 DNA binding IEA --
GO:0043565 sequence-specific DNA binding IEA --
genes like me logo Genes that share ontologies with NKX2-4: view

Phenotypes for NKX2-4 Gene

GenomeRNAi human phenotypes for NKX2-4:
genes like me logo Genes that share phenotypes with NKX2-4: view

Animal Model Products

CRISPR Products

miRNA for NKX2-4 Gene

miRTarBase miRNAs that target NKX2-4

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NKX2-4 Gene

Localization for NKX2-4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NKX2-4 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NKX2-4 gene
Compartment Confidence
nucleus 5

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear bodies (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for NKX2-4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with NKX2-4: view

Pathways & Interactions for NKX2-4 Gene

SuperPathways for NKX2-4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NKX2-4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007275 multicellular organism development IEA --
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with NKX2-4: view

No data available for Pathways by source and SIGNOR curated interactions for NKX2-4 Gene

Drugs & Compounds for NKX2-4 Gene

No Compound Related Data Available

Transcripts for NKX2-4 Gene

mRNA/cDNA for NKX2-4 Gene

(1) REFSEQ mRNAs :
(0) Additional mRNA sequences :
-
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for NKX2-4 Gene

NK2 homeobox 4:
Representative Sequences:

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for NKX2-4 Gene

No ASD Table

Relevant External Links for NKX2-4 Gene

GeneLoc Exon Structure for
NKX2-4
ECgene alternative splicing isoforms for
NKX2-4

Expression for NKX2-4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NKX2-4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NKX2-4 Gene

This gene is overexpressed in Testis (x26.7), Brain - Hypothalamus (x12.6), and Uterus (x6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NKX2-4 Gene



SOURCE GeneReport for Unigene cluster for NKX2-4 Gene:

Hs.456662
genes like me logo Genes that share expression patterns with NKX2-4: view

No data available for Protein differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for NKX2-4 Gene

Orthologs for NKX2-4 Gene

This gene was present in the common ancestor of animals.

Orthologs for NKX2-4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NKX2-4 33 34
  • 99.72 (n)
cow
(Bos Taurus)
Mammalia NKX2-4 34
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Nkx2-4 33 16 34
  • 90.38 (n)
rat
(Rattus norvegicus)
Mammalia Nkx2-4 33
  • 89.88 (n)
dog
(Canis familiaris)
Mammalia NKX2-4 34 33
  • 88.96 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NKX2-4 34
  • 73 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 47 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia nkx2-4 33
  • 68.23 (n)
zebrafish
(Danio rerio)
Actinopterygii nkx2.1a 34
  • 69 (a)
OneToMany
zgc:171531 33 34
  • 66.56 (n)
fruit fly
(Drosophila melanogaster)
Insecta scro 33 34
  • 51.2 (n)
worm
(Caenorhabditis elegans)
Secernentea ceh-24 34
  • 32 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CS-TTF1 34
  • 27 (a)
OneToMany
Species where no ortholog for NKX2-4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NKX2-4 Gene

ENSEMBL:
Gene Tree for NKX2-4 (if available)
TreeFam:
Gene Tree for NKX2-4 (if available)

Paralogs for NKX2-4 Gene

Paralogs for NKX2-4 Gene

(7) SIMAP similar genes for NKX2-4 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with NKX2-4: view

Variants for NKX2-4 Gene

Sequence variations from dbSNP and Humsavar for NKX2-4 Gene

SNP ID Clin Chr 20 pos Variation AA Info Type
rs1000412367 -- 21,396,419(-) G/A/T coding_sequence_variant, missense_variant
rs1000786079 -- 21,395,743(-) C/T 3_prime_UTR_variant
rs1002070964 -- 21,399,204(-) C/A upstream_transcript_variant
rs1002138717 -- 21,397,782(-) C/T upstream_transcript_variant
rs1004294591 -- 21,397,965(-) G/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for NKX2-4 Gene

Variant ID Type Subtype PubMed ID
nsv1143980 CNV deletion 24896259
nsv828702 CNV gain 20364138
nsv833941 CNV gain 17160897

Variation tolerance for NKX2-4 Gene

Gene Damage Index Score: 0.55; 11.87% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NKX2-4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NKX2-4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NKX2-4 Gene

Disorders for NKX2-4 Gene

Additional Disease Information for NKX2-4

No disorders were found for NKX2-4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NKX2-4 Gene

Publications for NKX2-4 Gene

  1. Conserved linkage of NK-2 homeobox gene pairs Nkx2-2/2-4 and Nkx2-1/2-9 in mammals. (PMID: 10818213) Wang CC … Harvey RP (Mammalian genome : official journal of the International Mammalian Genome Society 2000) 2 3 4 58
  2. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P … Rogers J (Nature 2001) 3 4 58
  3. Regional expression of the homeobox gene Nkx-2.2 in the developing mammalian forebrain. (PMID: 1346742) Price M … Di Lauro R (Neuron 1992) 2 3 58
  4. Lupus nephritis susceptibility loci in women with systemic lupus erythematosus. (PMID: 24925725) Chung SA … International Consortium for Systemic Lupus Erythematosus Genetics (Journal of the American Society of Nephrology : JASN 2014) 3 58
  5. A census of human transcription factors: function, expression and evolution. (PMID: 19274049) Vaquerizas JM … Luscombe NM (Nature reviews. Genetics 2009) 3

Products for NKX2-4 Gene

Sources for NKX2-4 Gene

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