Free for academic non-profit institutions. Other users need a Commercial license

Aliases for ISX Gene

Aliases for ISX Gene

  • Intestine Specific Homeobox 2 3
  • Intestine-Specific Homeobox 2 5
  • RAX-Like Homeobox 3 4
  • RAXLX 3 4
  • Pancreas-Intestine Homeodomain Transcription Factor 3
  • Pix-1 3

External Ids for ISX Gene

Previous GeneCards Identifiers for ISX Gene

  • GC22P033792
  • GC22P035462
  • GC22P018424

Summaries for ISX Gene

Entrez Gene Summary for ISX Gene

  • Homeobox genes encode DNA-binding proteins, many of which are thought to be involved in early embryonic development. Homeobox genes encode a DNA-binding domain of 60 to 63 amino acids referred to as the homeodomain. This gene is a member of the RAXLX homeobox gene family. [provided by RefSeq, Jul 2008]

GeneCards Summary for ISX Gene

ISX (Intestine Specific Homeobox) is a Protein Coding gene. GO annotations related to this gene include sequence-specific DNA binding. An important paralog of this gene is PRRX2.

UniProtKB/Swiss-Prot for ISX Gene

  • Transcription factor that regulates gene expression in intestine. May participate in vitamin A metabolism most likely by regulating BCO1 expression in the intestine (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ISX Gene

Genomics for ISX Gene

Regulatory Elements for ISX Gene

Enhancers for ISX Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around ISX on UCSC Golden Path with GeneCards custom track

Genomic Location for ISX Gene

35,066,136 bp from pter
35,087,387 bp from pter
21,252 bases
Plus strand

Genomic View for ISX Gene

Genes around ISX on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for ISX Gene

Proteins for ISX Gene

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

    Protein Symbol:
    Recommended name:
    Intestine-specific homeobox
    Protein Accession:
    Secondary Accessions:
    • Q68DJ5

    Protein attributes for ISX Gene

    245 amino acids
    Molecular mass:
    27011 Da
    Quaternary structure:
    No Data Available

neXtProt entry for ISX Gene

Proteomics data for ISX Gene at MOPED

Post-translational modifications for ISX Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ISX Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for ISX Gene

Domains & Families for ISX Gene

Gene Families for ISX Gene

Protein Domains for ISX Gene

Suggested Antigen Peptide Sequences for ISX Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 homeobox DNA-binding domain.
  • Contains 1 homeobox DNA-binding domain.
genes like me logo Genes that share domains with ISX: view

Function for ISX Gene

Molecular function for ISX Gene

UniProtKB/Swiss-Prot Function:
Transcription factor that regulates gene expression in intestine. May participate in vitamin A metabolism most likely by regulating BCO1 expression in the intestine (By similarity).

Gene Ontology (GO) - Molecular Function for ISX Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding IEA --
genes like me logo Genes that share ontologies with ISX: view
genes like me logo Genes that share phenotypes with ISX: view

Animal Models for ISX Gene

MGI Knock Outs for ISX:

Animal Model Products

miRNA for ISX Gene

miRTarBase miRNAs that target ISX

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ISX Gene

Localization for ISX Gene

Subcellular locations from UniProtKB/Swiss-Prot for ISX Gene


Subcellular locations from

Jensen Localization Image for ISX Gene COMPARTMENTS Subcellular localization image for ISX gene
Compartment Confidence
nucleus 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for ISX Gene

Pathways & Interactions for ISX Gene

SuperPathways for ISX Gene

No Data Available

Interacting Proteins for ISX Gene

Gene Ontology (GO) - Biological Process for ISX Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IEA --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:1904479 negative regulation of intestinal absorption IEA --
genes like me logo Genes that share ontologies with ISX: view

No data available for Pathways by source and SIGNOR curated interactions for ISX Gene

Drugs & Compounds for ISX Gene

No Compound Related Data Available

Transcripts for ISX Gene

mRNA/cDNA for ISX Gene

(2) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(9) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for ISX Gene

Intestine-specific homeobox:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for ISX Gene

No ASD Table

Relevant External Links for ISX Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ISX Gene

mRNA expression in normal human tissues for ISX Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ISX Gene

This gene is overexpressed in Colon - Transverse (x33.8) and Small Intestine - Terminal Ileum (x16.7).

SOURCE GeneReport for Unigene cluster for ISX Gene Hs.567637

genes like me logo Genes that share expression patterns with ISX: view

Primer Products

No data available for Protein differential expression in normal tissues , Protein expression , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for ISX Gene

Orthologs for ISX Gene

This gene was present in the common ancestor of animals.

Orthologs for ISX Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia ISX 35
  • 78.27 (n)
  • 68.72 (a)
ISX 36
  • 63 (a)
(Canis familiaris)
Mammalia ISX 35
  • 79.89 (n)
  • 71.55 (a)
ISX 36
  • 70 (a)
(Mus musculus)
Mammalia Isx 35
  • 72.52 (n)
  • 64.44 (a)
Isx 16
Isx 36
  • 64 (a)
(Pan troglodytes)
Mammalia ISX 35
  • 99.05 (n)
  • 98.78 (a)
ISX 36
  • 99 (a)
(Rattus norvegicus)
Mammalia Isx 35
  • 72.54 (n)
  • 66.96 (a)
(Monodelphis domestica)
Mammalia ISX 36
  • 46 (a)
(Gallus gallus)
Aves ISX 35
  • 59.39 (n)
  • 48.85 (a)
ISX 36
  • 34 (a)
(Anolis carolinensis)
Reptilia ISX 36
  • 64 (a)
(Danio rerio)
Actinopterygii rx1 36
  • 22 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG11294 36
  • 20 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 50 (a)
Species with no ortholog for ISX:
  • 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)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ISX Gene

Gene Tree for ISX (if available)
Gene Tree for ISX (if available)

Paralogs for ISX Gene

Paralogs for ISX Gene

(2) SIMAP similar genes for ISX Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with ISX: view

Variants for ISX Gene

Sequence variations from dbSNP and Humsavar for ISX Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs361863 - 35,067,169(-) CAGGC(C/T)CAGCT reference, missense
rs362090 - 35,067,256(-) TCCGG(A/G)GCCCT reference, missense
rs8140287 - 35,082,536(+) CAAGC(A/G)GAGGG reference, missense
rs7291048 - 35,084,474(+) TGTGG(A/C/T)CCTGC reference, missense
rs2097420 -- 35,070,672(-) ATTCA(C/T)CTTCA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ISX Gene

Variant ID Type Subtype PubMed ID
nsv834182 CNV Gain 17160897
esv34121 CNV Loss 18971310
dgv1401e1 CNV Complex 17122850
nsv834183 CNV Gain 17160897
esv35003 CNV Loss 17911159
esv26909 CNV Gain 19812545
essv7049 CNV CNV 17122850
esv2661366 CNV Deletion 23128226
nsv817989 CNV Loss 17921354
esv28292 CNV Loss 19812545
nsv820628 CNV Duplication 20802225

Variation tolerance for ISX Gene

Residual Variation Intolerance Score: 95.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.43; 77.24% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for ISX Gene

Disorders for ISX Gene

Relevant External Links for ISX

Genetic Association Database (GAD)
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for ISX Gene.

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

Publications for ISX Gene

  1. Why do cellular proteins linked to K63-polyubiquitin chains not associate with proteasomes? (PMID: 23314748) Nathan J.A. … Goldberg A.L. (EMBO J. 2013) 3 67
  2. Proinflammatory homeobox gene, ISX, regulates tumor growth and survival in hepatocellular carcinoma. (PMID: 23221382) Hsu S.H. … Wang S.N. (Cancer Res. 2013) 3
  3. Genetics and diet regulate vitamin A production via the homeobox transcription factor ISX. (PMID: 23393141) Lobo G.P. … von Lintig J. (J. Biol. Chem. 2013) 3
  4. Quantitative analysis of HSP90-client interactions reveals principles of substrate recognition. (PMID: 22939624) Taipale M. … Lindquist S. (Cell 2012) 3
  5. Isx participates in the maintenance of vitamin A metabolism by regulation of beta-carotene 15,15'-monooxygenase (Bcmo1) expression. (PMID: 18093975) Seino Y. … Seino S. (J. Biol. Chem. 2008) 3

Products for ISX Gene

Sources for ISX Gene