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

Aliases for KRT39 Gene

Aliases for KRT39 Gene

  • Keratin 39, Type I 2 3
  • Cytokeratin-39 3 4
  • Keratin-39 3 4
  • CK-39 3 4
  • KA35 3 4
  • K39 3 4
  • Keratin, Type I Cytoskeletal 39 3
  • Type I Hair Keratin KA35 3
  • Type I Hair Keratin Ka35 4
  • Keratin 39 2

External Ids for KRT39 Gene

Previous GeneCards Identifiers for KRT39 Gene

  • GC17M036369
  • GC17M039114
  • GC17M034909

Summaries for KRT39 Gene

Entrez Gene Summary for KRT39 Gene

  • This gene encodes a member of the type I (acidic) keratin family, which belongs to the superfamily of intermediate filament (IF) proteins. Keratins are heteropolymeric structural proteins which form the intermediate filament. These filaments, along with actin microfilaments and microtubules, compose the cytoskeleton of epithelial cells. The type I keratin genes are clustered in a region of chromosome 17q12-q21. [provided by RefSeq, Jul 2009]

GeneCards Summary for KRT39 Gene

KRT39 (Keratin 39, Type I) is a Protein Coding gene. GO annotations related to this gene include structural molecule activity. An important paralog of this gene is KRT34.

UniProtKB/Swiss-Prot for KRT39 Gene

  • May play a role in late hair differentiation

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for KRT39 Gene

Genomics for KRT39 Gene

Regulatory Elements for KRT39 Gene

Genomic Location for KRT39 Gene

40,958,417 bp from pter
40,966,892 bp from pter
8,476 bases
Minus strand

Genomic View for KRT39 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for KRT39 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for KRT39 Gene

Proteins for KRT39 Gene

  • Protein details for KRT39 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Keratin, type I cytoskeletal 39
    Protein Accession:
    Secondary Accessions:
    • B2RXK6
    • Q6IFU6

    Protein attributes for KRT39 Gene

    491 amino acids
    Molecular mass:
    55651 Da
    Quaternary structure:
    • Heterotetramer of two type I and two type II keratins
    • There are two types of cytoskeletal and microfibrillar keratin, I (acidic) and II (neutral to basic) (40-55 and 56-70 kDa, respectively)

neXtProt entry for KRT39 Gene

Proteomics data for KRT39 Gene at MOPED

Post-translational modifications for KRT39 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for KRT39 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for KRT39 Gene

Domains for KRT39 Gene

Gene Families for KRT39 Gene

  • IFF1 :Intermediate filaments type I, keratins (acidic)

Protein Domains for KRT39 Gene

Suggested Antigen Peptide Sequences for KRT39 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Q6A163
  • Belongs to the intermediate filament family.
genes like me logo Genes that share domains with KRT39: view

Function for KRT39 Gene

Molecular function for KRT39 Gene

UniProtKB/Swiss-Prot Function:
May play a role in late hair differentiation

Gene Ontology (GO) - Molecular Function for KRT39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IEA --
genes like me logo Genes that share ontologies with KRT39: view

Phenotypes for KRT39 Gene

GenomeRNAi human phenotypes for KRT39:
genes like me logo Genes that share phenotypes with KRT39: view

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for KRT39

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for KRT39 Gene

Localization for KRT39 Gene

Subcellular locations from

Jensen Localization Image for KRT39 Gene COMPARTMENTS Subcellular localization image for KRT39 gene
Compartment Confidence
cytoskeleton 3
cytosol 3
nucleus 2
extracellular 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for KRT39 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005882 intermediate filament IEA --
genes like me logo Genes that share ontologies with KRT39: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for KRT39 Gene

Pathways for KRT39 Gene

SuperPathways for KRT39 Gene

No Data Available

Interacting Proteins for KRT39 Gene

Gene Ontology (GO) - Biological Process for KRT39 Gene


No data available for Pathways by source for KRT39 Gene

Transcripts for KRT39 Gene

mRNA/cDNA for KRT39 Gene

(3) Additional mRNA sequences :
(6) Selected AceView cDNA sequences:
(1) REFSEQ mRNAs :
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for KRT39 Gene

Keratin 39:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for KRT39

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for KRT39 Gene

No ASD Table

Relevant External Links for KRT39 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for KRT39 Gene

mRNA expression in normal human tissues for KRT39 Gene

mRNA differential expression in normal tissues according to GTEx for KRT39 Gene

This gene is overexpressed in Skin - Not Sun Exposed (Suprapubic) (42.2) and Skin - Sun Exposed (Lower leg) (6.2).

Protein differential expression in normal tissues for KRT39 Gene

This gene is overexpressed in Hair follicle (68.8).

Integrated Proteomics: protein expression from ProteomicsDB and MOPED for KRT39 Gene

SOURCE GeneReport for Unigene cluster for KRT39 Gene Hs.28467

mRNA Expression by UniProt/SwissProt for KRT39 Gene

Tissue specificity: Expressed in skin and scalp. In the hair follicle, it is present in the upper hair cuticle and the upper cortex. Also present in the in the upper portion of beard hairs (at protein level).
genes like me logo Genes that share expressions with KRT39: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for KRT39 Gene

Orthologs for KRT39 Gene

This gene was present in the common ancestor of chordates.

Orthologs for KRT39 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia KRT39 35
  • 83.23 (n)
  • 76.17 (a)
KRT39 36
  • 76 (a)
(Canis familiaris)
Mammalia KRT39 35
  • 83.51 (n)
  • 77.13 (a)
KRT39 36
  • 77 (a)
(Mus musculus)
Mammalia Krt39 35
  • 79.86 (n)
  • 74.79 (a)
Krt39 16
Krt39 36
  • 74 (a)
(Pan troglodytes)
Mammalia KRT39 35
  • 99.19 (n)
  • 98.57 (a)
KRT39 36
  • 99 (a)
(Rattus norvegicus)
Mammalia Krt39 35
  • 79.9 (n)
  • 75.05 (a)
(Monodelphis domestica)
Mammalia KRT39 36
  • 57 (a)
(Ornithorhynchus anatinus)
Mammalia KRT39 36
  • 56 (a)
(Anolis carolinensis)
Reptilia -- 36
  • 40 (a)
-- 36
  • 49 (a)
(Danio rerio)
Actinopterygii BX469912.1 36
  • 19 (a)
cyt1 36
  • 38 (a)
cyt1l 36
  • 38 (a)
krt1-19d 36
  • 35 (a)
krt15 36
  • 33 (a)
krt17 36
  • 37 (a)
si:dkeyp-113d7.4 36
  • 32 (a)
wu:fb17f05 36
  • 37 (a)
zgc:109868 36
  • 38 (a)
zgc:136902 36
  • 34 (a)
zgc:153629 36
  • 35 (a)
zgc:92035 36
  • 34 (a)
zgc:92061 36
  • 37 (a)
zgc:92533 36
  • 19 (a)
Species with no ortholog for KRT39:
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 KRT39 Gene

Gene Tree for KRT39 (if available)
Gene Tree for KRT39 (if available)

Paralogs for KRT39 Gene

genes like me logo Genes that share paralogs with KRT39: view

Variants for KRT39 Gene

Sequence variations from dbSNP and Humsavar for KRT39 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs918075 -- 40,966,312(-) TTTAA(A/T)ATTTT intron-variant
rs2041860 -- 40,964,086(-) ACACA(C/T)GTTTT intron-variant
rs2063333 -- 40,961,997(+) GCAGC(A/G)TTTCG intron-variant
rs2315605 -- 40,960,995(+) gtgtt(C/G)tggtg intron-variant
rs3067627 -- 40,961,147(+) aaaaa(-/AAA)GCATT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for KRT39 Gene

Variant ID Type Subtype PubMed ID
nsv9550 CNV Loss 18304495
nsv908230 CNV Loss 21882294

Relevant External Links for KRT39 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for KRT39 Gene

Disorders for KRT39 Gene

(1) University of Copenhagen DISEASES for KRT39 Gene

genes like me logo Genes that share disorders with KRT39: view

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , Novoseek inferred disease relationships , Genatlas and External Links for KRT39 Gene

Publications for KRT39 Gene

  1. Comprehensive analysis of keratin gene clusters in humans and rodents. (PMID: 15085952) Hesse M. … Magin T.M. (Eur. J. Cell Biol. 2004) 3 4
  2. The human type I keratin gene family: characterization of new hair follicle specific members and evaluation of the chromosome 17q21.2 gene domain. (PMID: 15617563) Rogers M.A. … Schweizer J. (Differentiation 2004) 3 4
  3. New consensus nomenclature for mammalian keratins. (PMID: 16831889) Schweizer J. … Wright M.W. (J. Cell Biol. 2006) 2 3
  4. Novel type I hair keratins K39 and K40 are the last to be expressed in differentiation of the hair: completion of the human hair keratin catalog. (PMID: 17301834) Langbein L. … Schweizer J. (J. Invest. Dermatol. 2007) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 4

Products for KRT39 Gene

Sources for KRT39 Gene

Back to Top