KRT39 Gene
protein-coding GIFtS: 40
GCID: GC17M039114
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|
keratin 39
| |
Aliases
for KRT39 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Keratin 391 2 | | Cytokeratin-393 | | KA351 2 3 | | Keratin, Type I Cytoskeletal 392 | | Type I Hair Keratin Ka352 3 | | Keratin-393 | | CK-392 3 | | Cytokeratin-393 | | K392 3 | | Keratin-393 |
Export aliases for KRT39 gene to outside databasesPrevious GC identifers: GC17M036369 GC17M034909 |
Summaries
for KRT39 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for KRT39:
This gene encodes a member of the type I (acidic) keratin family, which belongs to the superfamily of intermediatefilament (IF) proteins. Keratins are heteropolymeric structural proteins which form the intermediate filament. Thesefilaments, along with actin microfilaments and microtubules, compose the cytoskeleton of epithelial cells. The type Ikeratin genes are clustered in a region of chromosome 17q12-q21. (provided by RefSeq, Jul 2009)
UniProtKB/Swiss-Prot: K1C39_HUMAN, Q6A163Function: May play a role in late hair differentiation
|
Genomic Views
for KRT39 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000017.10 NC_018928.1 NT_010783.15
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the KRT39 gene promoter:
AML1a FOXF2 Pax-5 GCNF FOXO3 FOXO3b FAC1 GCNF-1 FOXO3a GCNF-2
Other transcription factors
Search SABiosciences Chromatin IP Primers for KRT39
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat KRT39 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 17q21.2 Ensembl cytogenetic band: 17q21.2 HGNC cytogenetic band: 17q21.2KRT39 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 17 GeneLoc Exon Structure GeneLoc location for GC17M039114: view genomic region
(about GC identifiers)
Start:
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39,114,669 bp from pter |
End:
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39,123,144 bp from pter |
Size:
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8,476 bases |
Orientation:
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minus strand |
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Proteins
for KRT39 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: K1C39_HUMAN, Q6A163 (See
protein sequence)Recommended Name: Keratin, type I cytoskeletal 39 Size: 491 amino acids; 55651 Da
Subunit: Heterotetramer of two type I and two type II keratins
Developmental stage: During differentiation of the hair, it is one of the last keratins expressed
Miscellaneous: There are two types of cytoskeletal and microfibrillar keratin, I (acidic) and II (neutral to basic)(40-55 and 56-70 kDa, respectively)
Secondary accessions: B2RXK6 Q6IFU6Explore the universe of human proteins at neXtProt for KRT39: NX_Q6A163
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q6A163
KRT39 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_998821.3
ENSEMBL proteins: ENSP00000347823 ENSP00000464180
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005882 | intermediate filament |
IEA | -- |
KRT39 for ontologies About GeneDecksing
KRT39 Antibody Products:
Assay Products for KRT39: |
Protein
Domains /
Families
for KRT39 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
KRT39 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q6A163ProtoNet protein and cluster: Q6A163 2 Blocks protein families: IPB001664 Intermediate filament protein IPB002957 Type I keratin signature
UniProtKB/Swiss-Prot: K1C39_HUMAN, Q6A163Similarity: Belongs to the intermediate filament family |
Function
for KRT39 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: K1C39_HUMAN, Q6A163Function: May play a role in late hair differentiation
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for KRT39 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for KRT39
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for KRT39 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005198 | structural molecule activity |
IEA | -- |
KRT39 for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for KRT39:
|
Pathways & Interactions
for KRT39 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for KRT39
|
Drugs & Compounds
for KRT39 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for KRT39
Search CenterWatch for drugs/clinical trials and news about KRT39 / K1C39
|
Transcripts
for KRT39 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for KRT39 gene: NM_213656.3 Unigene Cluster for KRT39: Keratin 39 Hs.28467 [show with all ESTs]Unigene Representative Sequence: NM_2136563 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000355612(uc002hvo.1 uc010wfm.1) ENST00000578078 ENST00000578029
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for KRT39 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for KRT39
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: KRT39 (NM_213656) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for KRT39 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat KRT39 |
Additional cDNA sequence: AJ786657.1 BC157887.1 BC171907.1 2 DOTS entries: DT.102819723 DT.40110750 6 AceView cDNA sequences: BK004054 AJ786657 BX090195 R63932 NM_213656 R64023
GeneLoc Exon Structure
|
Expression
for KRT39 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| KRT39 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: CTCCTGCCAG
About this image
See KRT39 Protein Expression from SPIRE MOPED and PaxDB
SOURCE GeneReport for Unigene cluster: Hs.28467
UniProtKB/Swiss-Prot: K1C39_HUMAN, Q6A163Tissue specificity: Expressed in skin and scalp. In the hair follicle, it is present in the upper hair cuticle and theupper cortex. Also present in the in the upper portion of beard hairs (at protein level)
SABiosciences Custom PCR Arrays for KRT39
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for KRT39
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat KRT39 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat KRT39 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat KRT39 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for KRT39 |
Orthologs
for KRT39 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of chordates.
Orthologs for KRT39 gene from 2/9 species (see all 9) About this table
ENSEMBL Gene Tree for KRT39 (if available)
TreeFam Gene Tree for KRT39 (if available) |
Paralogs
for KRT39 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for KRT39 gene
- KRT342 KRT2222 KRT312 ENSG000002640582 KRT352 KRT402 BFSP22 KRT372
- KRT322 KRT382 KRT362 KRT33B2 KRT33A2
18/35 SIMAP similar genes for KRT39 using alignment to 2 protein entries: K1C39_HUMAN (see all proteins)
(see all similar genes):KRT15 KRT14 KRT19 KRT33A KRT34 K14
KRT33B KRT35 FLJ40504 KRT31 JUP KRT32
KRT17 KRT13 KRT36 KRT9 KRTHA7 KRT10
KRT39 for paralogs About GeneDecksing
|
Genomic Variants
for KRT39 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 17 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for KRT39 (39114669 - 39123144 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for KRT39: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing KRT39 |
|
Disorders
/ Diseases
for KRT39 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
KRT39 for disorders About GeneDecksing
2  diseases for KRT39: About MalaCardsvisceral leishmaniasis leishmaniasis
1 disease from the University of Copenhagen DISEASES database for KRT39:Visceral leishmaniasis Export disorders for KRT39 gene to outside databases
|
Publications
for KRT39 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for KRT39 gene integrated from 9 sources:
(articles sorted by number of sources associating them with KRT39) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- 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. (PubMed id 17301834)1, 2 Langbein L....Schweizer J. (2007)
- New consensus nomenclature for mammalian keratins. (PubMed id 16831889)1, 3 Schweizer J....Wright M.W. (2006)
- Comprehensive analysis of keratin gene clusters in humans and rodents. (PubMed id 15085952)1, 2 Hesse M.... Magin T.M. (2004)
- The human type I keratin gene family: characterization of new hair follicle specific members and evaluation of the chromosome 17q21.2 gene domain. (PubMed id 15617563)1, 2 Rogers M.A.... Schweizer J. (2004)
- DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)2 Zody M.C.... Nusbaum C. (2006)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for KRT39 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing KRT39 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing KRT39 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing KRT39 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for KRT39 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for KRT39 gene:
Search GeneIP for patents involving KRT39
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for KRT39 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for KRT39 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for KRT39 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for KRT39 | | | OriGene Protein Over-expression Lysate for KRT39 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for KRT39 | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for KRT39 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for KRT39 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
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| | | | Search Tocris compounds for KRT39 |
| |  |  |  |  | | | | |
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 | | | KRT39 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for KRT39 |
|  |  |  | | | | ThermoFisher Antibody for KRT39 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat KRT39 |
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