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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

KRTCAP3 Gene

protein-coding   GIFtS: 45
GCID: GC02P027665

keratinocyte associated protein 3
 Explore 2 diseases affiliated with
KRTCAP3 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for KRTCAP3    

Aliases
for KRTCAP3 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Keratinocyte Associated Protein 31 2     PRO98982
KCP31 2 3     Keratinocyte-Associated Protein 32
KCP-32 3     Keratinocytes Associated Protein 32
MRV2222     

External Ids:    HGNC: 289431   Entrez Gene: 2006342   Ensembl: ENSG000001579927   UniProtKB: Q53RY43   

Export aliases for KRTCAP3 gene to outside databases

Previous GC identifers: GC02P027639 GC02P027576 GC02P027518 GC02P027407


Summaries
for KRTCAP3 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
  --

Genomic Views
for KRTCAP3 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_000002.11  NC_018913.1  NT_022184.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the KRTCAP3 gene promoter:
         AhR   ER-alpha   AML1a   NRSF form 1   MIF-1   Arnt   HNF-4alpha1   PPAR-alpha   N-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: KRTCAP3 promoter sequence
   Search SABiosciences Chromatin IP Primers for KRTCAP3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat KRTCAP3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 2p23.3   Ensembl cytogenetic band:  2p23.3   HGNC cytogenetic band: 2p23.3

KRTCAP3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
KRTCAP3 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P027665:  view genomic region     (about GC identifiers)

Start:
 27,665,233 bp from pter      End:
 27,669,348 bp from pter
Size:
 4,116 bases      Orientation:
 plus strand

Proteins
for KRTCAP3 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: KCP3_HUMAN, Q53RY4 (See protein sequence)
Recommended Name: Keratinocyte-associated protein 3  
Size: 240 amino acids; 25627 Da
Subcellular location: Membrane; Multi-pass membrane protein
Secondary accessions: B7ZL49 Q6UW42 Q8IWS5
Alternative splicing: 2 isoforms:  Q53RY4-1   Q53RY4-2   

Explore the universe of human proteins at neXtProt for KRTCAP3: NX_Q53RY4

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q53RY4

    • KRTCAP3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001161836.1  NP_776252.2  

    ENSEMBL proteins: 
     ENSP00000288873   ENSP00000389860   ENSP00000384689   ENSP00000388115   ENSP00000442400  

    Human Recombinant Protein Products: 
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    Novus Biologicals KRTCAP3 Lysate
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    Uscn Proteins for KRTCAP3

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral to membrane IEA--


    KRTCAP3 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for KRTCAP3

    Protein Domains /
    Families
    for KRTCAP3 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    KRTCAP3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR020977 Beta-casein-like

    Graphical View of Domain Structure for InterPro Entry Q53RY4

    ProtoNet protein and cluster: Q53RY4

    UniProtKB/Swiss-Prot: KCP3_HUMAN, Q53RY4
    Similarity: Belongs to the TMEM54 family


    Function
    for KRTCAP3 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
    miRNA
    Products:            		Browse 3'-UTR reporter clones for miRNA target validation
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat KRTCAP3
    2 QIAGEN miScript miRNA Assays for microRNAs that regulate KRTCAP3:
    hsa-miR-370 hsa-miR-556-3p
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    Inhib. RNA
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    Gene Editing
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    Clone
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    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for KRTCAP3

    1 GenomeRNAi human phenotype for KRTCAP3:
     Increased gamma-H2AX phosphory 


    Pathways & Interactions
    for KRTCAP3 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 KRTCAP3

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for KRTCAP3 (ENSP000002888734) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Drugs & Compounds
    for KRTCAP3 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 Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for KRTCAP3
    Search CenterWatch for drugs/clinical trials and news about KRTCAP3 / KCP3 

    Transcripts
    for KRTCAP3 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 KRTCAP3 gene (2 alternative transcripts): 
    NM_001168364.1  NM_173853.3  

    Unigene Cluster for KRTCAP3:

    Keratinocyte associated protein 3
    Hs.59509  [show with all ESTs]
    Unigene Representative Sequence: AY358993
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000288873(uc002rks.3 uc010ylr.2) ENST00000453171 ENST00000407293(uc002rkt.3)
    ENST00000464699 ENST00000494572 ENST00000452499 ENST00000543753(uc021vfd.1)


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    2 QIAGEN miScript miRNA Assays for microRNAs that regulate KRTCAP3:
    hsa-miR-370 hsa-miR-556-3p
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for KRTCAP3 (see all 7)
    OriGene shRNA RFP: KRTCAP3
    OriGene siRNA: KRTCAP3
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat KRTCAP3
    Clone
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    OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for KRTCAP3 (see all 2)
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    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat KRTCAP3
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat KRTCAP3

    Additional cDNA sequence: 

    AY157576.1 AY358993.1 BC101687.1 BC101689.1 BC143574.1 

    4 DOTS entries:

    DT.97837772  DT.107008  DT.100655625  DT.91660245 

    24/37 AceView cDNA sequences (see all 37):

    CA489633 C00019 AW273371 CK903144 BI966835 AA627648 CK903626 CK903625 
    BM772636 BI963029 AA552438 AY157576 BM820787 NM_173853 W93943 AY358993 
    BQ631342 AW130295 CB160871 AJ403111 AI583153 BM841239 AW294768 AA531276 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for KRTCAP3    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b
    SP1:              -                                                   
    SP2:                                                                  
    SP3:              -     -     -                                       
    SP4:                                                                  


    ECgene alternative splicing isoforms for KRTCAP3

    Expression
    for KRTCAP3 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

    KRTCAP3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TCTGCAGGGG

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    KRTCAP3 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Line H9 (WA09) (Embryonic Stem Cell)Early Embryo, Inner Cell Mass
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See KRTCAP3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for KRTCAP3

    SOURCE GeneReport for Unigene cluster: Hs.59509

    UniProtKB/Swiss-Prot: KCP3_HUMAN, Q53RY4
    Tissue specificity: Expressed in skin, pancreas and keratinocytes

        SABiosciences Custom PCR Arrays for KRTCAP3
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    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for KRTCAP3

    Orthologs
    for KRTCAP3 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 KRTCAP3 gene from 3/10 species (see all 10)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves KRTCAP31 keratinocyte associated protein 3 63.72(n)
    61.33(a)    		   421984  XM_419994.3  XP_419994.1 
    African clawed frog
    (Xenopus laevis)    		 Amphibia Xl.218192 Xenopus laevis transcribed sequence with weak similarity more 74.3(n)    BJ030417.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii LOC1005382191 keratinocyte-associated protein 3-like 54.03(n)
    48.34(a)    		   100538219  XM_003200314.1  XP_003200362.1 


    ENSEMBL Gene Tree for KRTCAP3 (if available)
    TreeFam Gene Tree for KRTCAP3 (if available) 

    Paralogs
    for KRTCAP3 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for KRTCAP3 gene
    TMEM542  
    1 SIMAP similar gene for KRTCAP3 using alignment to 3 protein entries:     KCP3_HUMAN (see all proteins):
    TMEM54

    KRTCAP3 for paralogs           About GeneDecksing



    Genomic Variants
    for KRTCAP3 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

    10/34 NCBI SNPs in KRTCAP3 are shown (see all 34)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 2 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1996187831,2
    		--27665662(+) GGGCCA/GGGCTC 2 -- int10--------
    rs2018633621,2
    		--27665669(+) GCTCCC/GGGAGA 2 -- int10--------
    rs1868678511,2
    		C,--27665717(+) GTTTCC/TGTGGG 4 S syn10--------
    rs1401044661,2
    		C,--27665797(+) TTTAAC/TGAGTA 2 -- int10--------
    rs1452016191,2
    		C,--27665973(+) GTGAAC/ACTGCT 4 /K /N mis11Minor allele frequency- A:0.00NA 4360
    rs2001939001,2
    		--27665976(+) AACCTA/GCTCTT 4 L syn10--------
    rs2002537471,2
    		C,--27666005(+) GGGCCG/TCCTTC 4 R L mis10--------
    rs7801131,2
    		C,F,H,--27666009(+) CTCCTT/CCTTGC 4 /L syn1 trp38Minor allele frequency- C:0.01NS NA CSA 5398
    rs1404281631,2
    		C,--27666024(+) TCACTC/AACTGT 4 /L syn11Minor allele frequency- A:0.00NA 4534
    rs1163802881,2
    		C,F,--27666025(+) CACTCA/GCTGTG 4 T A mis12Minor allele frequency- G:0.00WA NA 4656

    HapMap Linkage Disequilibrium report for KRTCAP3 (27665233 - 27669348 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for KRTCAP3
         1 CNV: 9400

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    Disorders / Diseases
    for KRTCAP3 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
    KRTCAP3 for disorders           About GeneDecksing

    2 diseases for KRTCAP3:    About MalaCards
    intrahepatic cholangiocarcinoma    cholangiocarcinoma


    Export disorders for KRTCAP3 gene to outside databases

    Publications
    for KRTCAP3 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 KRTCAP3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with KRTCAP3)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    2. Identification of novel genes for secreted and membrane-anchored proteins in human keratinocytes. (PubMed id 12752121)1, 2 Bonkobara M.... Ariizumi K. (2003)
    3. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    4. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. (PubMed id 16712791)1 Wang A.G....Kim N.S. (2006)
    5. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W....Wilson R.K. (2005)
    6. Transcriptome analysis of human gastric cancer. (PubMed id 16341674)1 Oh J.H....Kim N.S. (2005)
    7. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)2 Clark H.F.... Gray A.M. (2003)
    8. 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 KRTCAP3 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing KRTCAP3 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 200634 HGNC: 28943 AceView: KRTCAP3 Ensembl:ENSG00000157992 euGenes: HUgn200634
    ECgene: KRTCAP3 H-InvDB: KRTCAP3

    Other Databases showing KRTCAP3 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing KRTCAP3 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
    NameDescription
    PharmGKB entry for KRTCAP3 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for KRTCAP3 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for KRTCAP3 gene:
    Search GeneIP for patents involving KRTCAP3

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    Products
    for KRTCAP3 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),
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     QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat KRTCAP3
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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