Human Gene KRT18P55 (uc002has.3) Description and Page Index
  Description: Homo sapiens keratin 18 pseudogene 55 (KRT18P55), non-coding RNA.
Transcript (Including UTRs)
   Position: hg19 chr17:26,603,012-26,634,408 Size: 31,397 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chr17:26,603,695-26,633,156 Size: 29,462 Coding Exon Count: 2 

Page IndexSequence and LinksCTDGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:26,603,012-26,634,408)mRNA (may differ from genome)Protein (259 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSCGAP
EnsemblEntrez GeneExonPrimerGeneCardsH-INVHGNC
LynxMGIPubMedStanford SOURCEUniProtKB

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 3.75 RPKM in Testis
Total median expression: 3.75 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -237.30487-0.487 Picture PostScript Text
3' UTR -258.70683-0.379 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
IPR002957 - Keratin_I

Pfam Domains:
PF00038 - Intermediate filament protein

ModBase Predicted Comparative 3D Structure on Q8N7Q0
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 Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005198 structural molecule activity

Cellular Component:
GO:0005882 intermediate filament


-  Descriptions from all associated GenBank mRNAs
  AK097823 - Homo sapiens cDNA FLJ40504 fis, clone TESTI2045509, highly similar to KERATIN, TYPE I CYTOSKELETAL 18.
BC112028 - Homo sapiens hypothetical protein FLJ40504, mRNA (cDNA clone MGC:138233 IMAGE:8327496), complete cds.
BC112026 - Homo sapiens hypothetical protein FLJ40504, mRNA (cDNA clone MGC:138231 IMAGE:8327494), complete cds.
KJ901206 - Synthetic construct Homo sapiens clone ccsbBroadEn_10600 KRT18P55 gene, encodes complete protein.
JD274193 - Sequence 255217 from Patent EP1572962.
JD424137 - Sequence 405161 from Patent EP1572962.
JD239458 - Sequence 220482 from Patent EP1572962.
JD101288 - Sequence 82312 from Patent EP1572962.
JD444547 - Sequence 425571 from Patent EP1572962.
JD440286 - Sequence 421310 from Patent EP1572962.
JD174147 - Sequence 155171 from Patent EP1572962.
DQ597097 - Homo sapiens piRNA piR-35163, complete sequence.
JD035038 - Sequence 16062 from Patent EP1572962.
JD035340 - Sequence 16364 from Patent EP1572962.
JD126547 - Sequence 107571 from Patent EP1572962.
JD228259 - Sequence 209283 from Patent EP1572962.
JD291725 - Sequence 272749 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: FLJ40504, hCG_31808, NR_028334, Q8N7Q0, Q8N7Q0_HUMAN
UCSC ID: uc002has.3
RefSeq Accession: NR_028334
Protein: Q8N7Q0

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NR_028334.1
exon count: 3CDS single in 3' UTR: no RNA size: 1950
ORF size: 780CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1172.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.