Human Gene CFAP20 (ENST00000262498.8_7) from GENCODE V47lift37
  Description: cilia and flagella associated protein 20 (from RefSeq NM_013242.3)
Gencode Transcript: ENST00000262498.8_7
Gencode Gene: ENSG00000070761.8_9
Transcript (Including UTRs)
   Position: hg19 chr16:58,147,496-58,163,285 Size: 15,790 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr16:58,147,929-58,163,019 Size: 15,091 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:58,147,496-58,163,285)mRNA (may differ from genome)Protein (193 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
MalacardsMGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CP080_HUMAN
DESCRIPTION: RecName: Full=UPF0468 protein C16orf80; AltName: Full=Transcription factor IIB;
SIMILARITY: Belongs to the UPF0468 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: CFAP20
Diseases sorted by gene-association score: familial atrial fibrillation (1)

+  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: 40.75 RPKM in Testis
Total median expression: 822.24 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 -118.10266-0.444 Picture PostScript Text
3' UTR -107.20433-0.248 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
IPR007714 - DUF667

Pfam Domains:
PF05018 - Protein of unknown function (DUF667)

ModBase Predicted Comparative 3D Structure on Q9Y6A4
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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding

Biological Process:
GO:0007275 multicellular organism development
GO:0018095 protein polyglutamylation
GO:0060271 cilium assembly
GO:0060296 regulation of cilium beat frequency involved in ciliary motility
GO:2000147 positive regulation of cell motility
GO:2000253 positive regulation of feeding behavior

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005814 centriole
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0005929 cilium
GO:0036064 ciliary basal body
GO:0042995 cell projection
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  LF208242 - JP 2014500723-A/15745: Polycomb-Associated Non-Coding RNAs.
AK027099 - Homo sapiens cDNA: FLJ23446 fis, clone HSI02289, highly similar to AF093680 Homo sapiens transcription factor IIB mRNA.
BC005152 - Homo sapiens chromosome 16 open reading frame 80, mRNA (cDNA clone MGC:3336 IMAGE:3528301), complete cds.
AF093680 - Homo sapiens transcription factor IIB mRNA, complete cds.
JD349815 - Sequence 330839 from Patent EP1572962.
LF373775 - JP 2014500723-A/181278: Polycomb-Associated Non-Coding RNAs.
JD555247 - Sequence 536271 from Patent EP1572962.
JD527845 - Sequence 508869 from Patent EP1572962.
JD299133 - Sequence 280157 from Patent EP1572962.
LF373776 - JP 2014500723-A/181279: Polycomb-Associated Non-Coding RNAs.
AF087845 - Homo sapiens EVORF mRNA, complete cds.
LF373777 - JP 2014500723-A/181280: Polycomb-Associated Non-Coding RNAs.
AB463509 - Synthetic construct DNA, clone: pF1KB7549, Homo sapiens C16orf80 gene for chromosome 16 open reading frame 80, without stop codon, in Flexi system.
CU675021 - Synthetic construct Homo sapiens gateway clone IMAGE:100020244 5' read C16orf80 mRNA.
EU446792 - Synthetic construct Homo sapiens clone IMAGE:100069810; IMAGE:100012001; FLH258585.01L chromosome 16 open reading frame 80 (C16orf80) gene, encodes complete protein.
KJ893686 - Synthetic construct Homo sapiens clone ccsbBroadEn_03080 C16orf80 gene, encodes complete protein.
LF373778 - JP 2014500723-A/181281: Polycomb-Associated Non-Coding RNAs.
AK297819 - Homo sapiens cDNA FLJ58848 complete cds, highly similar to Homo sapiens transcription factor IIB.
LF373780 - JP 2014500723-A/181283: Polycomb-Associated Non-Coding RNAs.
LF373781 - JP 2014500723-A/181284: Polycomb-Associated Non-Coding RNAs.
LF373783 - JP 2014500723-A/181286: Polycomb-Associated Non-Coding RNAs.
LF373784 - JP 2014500723-A/181287: Polycomb-Associated Non-Coding RNAs.
LF373787 - JP 2014500723-A/181290: Polycomb-Associated Non-Coding RNAs.
JD057432 - Sequence 38456 from Patent EP1572962.
JD318395 - Sequence 299419 from Patent EP1572962.
JD543709 - Sequence 524733 from Patent EP1572962.
JD225891 - Sequence 206915 from Patent EP1572962.
MA443819 - JP 2018138019-A/15745: Polycomb-Associated Non-Coding RNAs.
MA609352 - JP 2018138019-A/181278: Polycomb-Associated Non-Coding RNAs.
MA609353 - JP 2018138019-A/181279: Polycomb-Associated Non-Coding RNAs.
MA609354 - JP 2018138019-A/181280: Polycomb-Associated Non-Coding RNAs.
MA609355 - JP 2018138019-A/181281: Polycomb-Associated Non-Coding RNAs.
MA609357 - JP 2018138019-A/181283: Polycomb-Associated Non-Coding RNAs.
MA609358 - JP 2018138019-A/181284: Polycomb-Associated Non-Coding RNAs.
MA609360 - JP 2018138019-A/181286: Polycomb-Associated Non-Coding RNAs.
MA609361 - JP 2018138019-A/181287: Polycomb-Associated Non-Coding RNAs.
MA609364 - JP 2018138019-A/181290: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: BUG22, C16orf80, CFA20_HUMAN, CFAP20 , ENST00000262498.1, ENST00000262498.2, ENST00000262498.3, ENST00000262498.4, ENST00000262498.5, ENST00000262498.6, ENST00000262498.7, GTL3, NM_013242, Q9Y6A4, uc317haz.1, uc317haz.2
UCSC ID: ENST00000262498.8_7
RefSeq Accession: NM_013242.3
Protein: Q9Y6A4 (aka CP080_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.