Human Gene KRT20 (ENST00000167588.4_7) from GENCODE V47lift37
  Description: keratin 20 (from RefSeq NM_019010.3)
Gencode Transcript: ENST00000167588.4_7
Gencode Gene: ENSG00000171431.4_9
Transcript (Including UTRs)
   Position: hg19 chr17:39,032,141-39,041,494 Size: 9,354 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr17:39,032,613-39,041,437 Size: 8,825 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:39,032,141-39,041,494)mRNA (may differ from genome)Protein (424 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: K1C20_HUMAN
DESCRIPTION: RecName: Full=Keratin, type I cytoskeletal 20; AltName: Full=Cytokeratin-20; Short=CK-20; AltName: Full=Keratin-20; Short=K20; AltName: Full=Protein IT;
FUNCTION: Plays a significant role in maintaining keratin filament organization in intestinal epithelia. When phosphorylated, plays a role in the secretion of mucin in the small intestine (By similarity).
SUBUNIT: Heterotetramer of two type I and two type II keratins. Associates with KRT8.
SUBCELLULAR LOCATION: Cytoplasm.
TISSUE SPECIFICITY: Expressed predominantly in the intestinal epithelium. Expressed in luminal cells of colonic mucosa. Also expressed in the Merkel cells of keratinized oral mucosa; specifically at the tips of some rete ridges of the gingival mucosa, in the basal layer of the palatal mucosa and in the taste buds of lingual mucosa.
DEVELOPMENTAL STAGE: First detected at embryonic week 8 in individual 'converted' simple epithelial cells of the developing intestinal mucosa. In later fetal stages, synthesis extends over most goblet cells and a variable number of villus enterocytes. In the developing gastric and intestinal mucosa, expressed in all enterocytes and goblet cells as well as certain 'low- differentiated' columnar cells, whereas the neuroendocrine and Paneth cells are negative.
PTM: Hyperphosphorylation at Ser-13 occurs during the early stages of apoptosis but becomes less prominent during the later stages. Phosphorylation at Ser-13 also increases in response to stress brought on by cell injury (By similarity).
PTM: Proteolytically cleaved by caspases during apoptosis. Cleavage occurs at Asp-228.
MISCELLANEOUS: There are two types of cytoskeletal and microfibrillar keratin: I (acidic; 40-55 kDa) and II (neutral to basic; 56-70 kDa).
SIMILARITY: Belongs to the intermediate filament family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: KRT20
Diseases sorted by gene-association score: merkel cell carcinoma (39), paget disease, extramammary (25), lymphoepithelioma-like carcinoma (23), signet ring cell adenocarcinoma (22), glandular cystitis (22), jejunal adenocarcinoma (21), transitional cell carcinoma (19), inverted papilloma (19), cervical adenocarcinoma (17), cystic teratoma (17), dermoid cyst (17), ovarian brenner tumor (16), pancreatic ductal carcinoma (16), bladder urothelial carcinoma (16), infiltrative basal cell carcinoma (16), large intestine adenocarcinoma (15), lung acinar adenocarcinoma (15), bladder adenocarcinoma (15), intratubular embryonal carcinoma (15), appendix cancer (14), vaginal benign neoplasm (14), vaginal adenoma (14), vaginal tubulovillous adenoma (14), gastric adenocarcinoma (14), colon adenocarcinoma (13), cystadenoma (13), gastrointestinal carcinoma (13), mucinous bronchioloalveolar adenocarcinoma (13), mucinous cystadenocarcinoma (13), rectal neoplasm (13), cystic basal cell carcinoma (13), ovarian mucinous adenocarcinoma (12), pseudomyxoma peritonei (12), urinary bladder cancer (12), bladder cancer, somatic (12), mucinous adenocarcinoma (12), nipples, supernumerary (11), ovarian mucinous neoplasm (11), bladder papillary transitional cell neoplasm (11), urinary tract papillary transitional cell benign neoplasm (11), meibomian cyst (11), villous adenoma (11), neuroendocrine tumor (11), thymus adenocarcinoma (11), seminal vesicle adenocarcinoma (11), mammary paget's disease (11), malignant syringoma (11), bile duct cystadenocarcinoma (11), cholangiocarcinoma, susceptibility to (11), vulva adenocarcinoma (10), bladder lymphoma (10), gastric diffuse adenocarcinoma (10), goblet cell carcinoid (10), adenoid squamous cell carcinoma (10), actinic keratosis (10), colorectal cancer (10), medulloepithelioma (10), clear cell adenocarcinoma (9), adenocarcinoma in situ (9), small cell carcinoma (9), pancreatic mucinous cystadenoma (9), chronic cystitis (9), morpheaform basal cell carcinoma (9), endocervical adenocarcinoma (9), papillary serous adenocarcinoma (9), ampulla of vater adenocarcinoma (9), large cell neuroendocrine carcinoma (9), bile duct carcinoma (9), eccrine sweat gland neoplasm (9), glycogen-rich clear cell breast carcinoma (8), small intestine cancer (8), sweat gland cancer (8), rete testis adenocarcinoma (8), renal pelvis carcinoma (8), ovarian cystic teratoma (8), cystadenofibroma (8), benign mesothelioma (8), papillary carcinoma (8), basal cell carcinoma (8), integumentary system cancer (8), small cell carcinoma of the bladder (8), rectum adenocarcinoma (8), linitis plastica (8), transverse colon cancer (7), eyelid neoplasm (7), colorectal adenocarcinoma (7), skin benign neoplasm (7), peritoneal mesothelioma (7), horseshoe kidney (7), papilloma (7), vulval paget's disease (7), ovarian large-cell neuroendocrine carcinoma (7), infundibulocystic basal cell carcinoma (7), krukenberg carcinoma (7), dendritic cell tumor (7), prostatic acinar adenocarcinoma (6), immune system organ benign neoplasm (6), thymus lipoma (6), rete testis neoplasm (6), cecum adenocarcinoma (6), intrahepatic cholangiocarcinoma (6), barrett esophagus/esophageal adenocarcinoma (6), lung cancer susceptibility 3 (6), cribriform carcinoma (6), ampulla of vater neoplasm (6), mature teratoma of the ovary (6), mesothelioma, somatic (6), small cell cancer of the lung, somatic (6), cystitis cystica (6), teratoma (6), cavernous hemangioma (5), fuchs' endothelial dystrophy (5), intestinal obstruction (5), appendix adenocarcinoma (5), secretory meningioma (5), biliary papillomatosis (5), malignant epithelial mesothelioma (5), duodenum cancer (5), urinary system disease (5), leukocoria (4), polycystic liver disease 1 (4), stomach cancer (2), lung cancer (2), renal cell carcinoma (2), ovarian cancer, somatic (2), cell type cancer (1), gastric cancer, somatic (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 216.80 RPKM in Colon - Transverse
Total median expression: 412.67 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -5.9057-0.104 Picture PostScript Text
3' UTR -101.40472-0.215 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR016044 - F
IPR001664 - IF
IPR018039 - Intermediate_filament_CS
IPR002957 - Keratin_I

Pfam Domains:
PF00038 - Intermediate filament protein

SCOP Domains:
46579 - Prefoldin
64593 - Intermediate filament protein, coiled coil region
90257 - Myosin rod fragments

ModBase Predicted Comparative 3D Structure on P35900
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005198 structural molecule activity
GO:0005200 structural constituent of cytoskeleton
GO:0005515 protein binding

Biological Process:
GO:0006915 apoptotic process
GO:0009267 cellular response to starvation
GO:0031424 keratinization
GO:0045109 intermediate filament organization
GO:0050708 regulation of protein secretion
GO:0070268 cornification

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005882 intermediate filament


-  Descriptions from all associated GenBank mRNAs
  BC031559 - Homo sapiens keratin 20, mRNA (cDNA clone MGC:35423 IMAGE:5189289), complete cds.
X73502 - H. Sapiens mRNA for cytokeratin 20.
JD434104 - Sequence 415128 from Patent EP1572962.
DQ890783 - Synthetic construct clone IMAGE:100003413; FLH165915.01X; RZPDo839A0786D keratin 20 (KRT20) gene, encodes complete protein.
AK312744 - Homo sapiens cDNA, FLJ93153, highly similar to Homo sapiens keratin 20 (KRT20), mRNA.
KJ894027 - Synthetic construct Homo sapiens clone ccsbBroadEn_03421 KRT20 gene, encodes complete protein.
DQ896754 - Synthetic construct Homo sapiens clone IMAGE:100011214; FLH165911.01L; RZPDo839A0785D keratin 20 (KRT20) gene, encodes complete protein.
AB528550 - Synthetic construct DNA, clone: pF1KB6659, Homo sapiens KRT20 gene for keratin 20, without stop codon, in Flexi system.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P35900 (Reactome details) participates in the following event(s):

R-HSA-6805546 Keratin type I binds keratin type II
R-HSA-6805573 Keratin type I/type II heterodimers form tetramers
R-HSA-6806613 Keratin tetramers bind to form unit length filaments
R-HSA-6805567 Keratinization
R-HSA-1266738 Developmental Biology

-  Other Names for This Gene
  Alternate Gene Symbols: B2R6W7, ENST00000167588.1, ENST00000167588.2, ENST00000167588.3, K1C20_HUMAN, NM_019010, P35900, uc317cdo.1, uc317cdo.2
UCSC ID: ENST00000167588.4_7
RefSeq Accession: NM_019010.3
Protein: P35900 (aka K1C20_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.