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KRTCAP3 keratinocyte associated protein 3 [ Homo sapiens (human) ]

Gene ID: 200634, updated on 5-Mar-2024

Summary

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Official Symbol
KRTCAP3provided by HGNC
Official Full Name
keratinocyte associated protein 3provided by HGNC
Primary source
HGNC:HGNC:28943
See related
Ensembl:ENSG00000157992 MIM:619261; AllianceGenome:HGNC:28943
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
KCP3
Summary
Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in colon (RPKM 15.6), small intestine (RPKM 13.3) and 22 other tissues See more
Orthologs
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Genomic context

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Location:
2p23.3
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (27442381..27446481)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (27484734..27488837)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (27665248..27669348)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene protein phosphatase, Mg2+/Mn2+ dependent 1G Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:27618171-27618672 Neighboring gene ferritin heavy chain 1 pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11298 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11299 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11300 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11301 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11302 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15507 Neighboring gene nuclear receptor binding protein 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:27665383-27665925 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr2:27676057-27677256 Neighboring gene intraflagellar transport 172 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr2:27681686-27682885 Neighboring gene RNA, U6 small nuclear 986, pseudogene Neighboring gene fibronectin type III domain containing 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Identification of novel genes for secreted and membrane-anchored proteins in human keratinocytes. Bonkobara M, et al. Br J Dermatol, 2003 Apr. PMID 12752121
  2. Proteome-scale Binary Interactomics in Human Cells. Lievens S, et al. Mol Cell Proteomics, 2016 Dec. PMID 27803151, Free PMC Article
  3. Genomic study in Mexicans identifies a new locus for triglycerides and refines European lipid loci. Weissglas-Volkov D, et al. J Med Genet, 2013 May. PMID 23505323, Free PMC Article
  4. Genome-scale RNAi screen for host factors required for HIV replication. Zhou H, et al. Cell Host Microbe, 2008 Nov 13. PMID 18976975
  5. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Hillier LW, et al. Nature, 2005 Apr 7. PMID 15815621

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genomic study in Mexicans identifies a new locus for triglycerides and refines European lipid loci.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of keratinocyte associated protein 3 (KRTCAP3) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC126736, MGC126738

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
keratinocyte-associated protein 3
Names
keratinocytes associated protein 3

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001168364.2 → NP_001161836.1  keratinocyte-associated protein 3

    See identical proteins and their annotated locations for NP_001161836.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1 - 3 encode the same protein.
    Source sequence(s)
    AC074117, BC101689, BM794111, CB160871
    Consensus CDS
    CCDS1754.1
    UniProtKB/Swiss-Prot
    B7ZL49, Q53RY4, Q6UW42, Q8IWS5
    Related
    ENSP00000442400.1, ENST00000543753.5
    Conserved Domains (1) summary
    pfam12304
    Location:19 → 206
    BCLP; Beta-casein like protein

  2. NM_001321325.2 → NP_001308254.1  keratinocyte-associated protein 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR compared to variant 1. Variants 1 - 3 encode the same protein.
    Source sequence(s)
    AY358993, BC143574
    Consensus CDS
    CCDS1754.1
    UniProtKB/Swiss-Prot
    B7ZL49, Q53RY4, Q6UW42, Q8IWS5
    Related
    ENSP00000384689.1, ENST00000407293.5
    Conserved Domains (1) summary
    pfam12304
    Location:19 → 206
    BCLP; Beta-casein like protein

  3. NM_173853.4 → NP_776252.2  keratinocyte-associated protein 3

    See identical proteins and their annotated locations for NP_776252.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR compared to variant 1. Variants 1 - 3 encode the same protein.
    Source sequence(s)
    AY157576, BC101689
    Consensus CDS
    CCDS1754.1
    UniProtKB/Swiss-Prot
    B7ZL49, Q53RY4, Q6UW42, Q8IWS5
    Related
    ENSP00000288873.3, ENST00000288873.7
    Conserved Domains (1) summary
    pfam12304
    Location:19 → 206
    BCLP; Beta-casein like protein

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    27442381..27446481
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047443704.1 → XP_047299660.1  keratinocyte-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    B7ZL49, Q53RY4, Q6UW42, Q8IWS5

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    27484734..27488837
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054341003.1 → XP_054196978.1  keratinocyte-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    B7ZL49, Q53RY4, Q6UW42, Q8IWS5
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q53RY4.1 GenPept UniProtKB/Swiss-Prot:Q53RY4

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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