Human Gene C16orf54 (uc002dtp.2) Description and Page Index
  Description: Homo sapiens chromosome 16 open reading frame 54 (C16orf54), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr16:29,753,786-29,757,340 Size: 3,555 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr16:29,755,598-29,756,272 Size: 675 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsGene 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 (chr16:29,753,786-29,757,340)mRNA (may differ from genome)Protein (224 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: CP054_HUMAN
DESCRIPTION: RecName: Full=Transmembrane protein C16orf54;
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).
PTM: O-glycosylated with core 1 or possibly core 8 glycans.

+  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: 28.95 RPKM in Whole Blood
Total median expression: 64.69 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 -36.50109-0.335 Picture PostScript Text
3' UTR -628.741812-0.347 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
  Pfam Domains:
PF15755 - Domain of unknown function (DUF4689)

ModBase Predicted Comparative 3D Structure on Q6UWD8
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC025741 - Homo sapiens chromosome 16 open reading frame 54, mRNA (cDNA clone IMAGE:5223907), with apparent retained intron.
AK093000 - Homo sapiens cDNA FLJ35681 fis, clone SPLEN2019077.
AX747848 - Sequence 1373 from Patent EP1308459.
LF207906 - JP 2014500723-A/15409: Polycomb-Associated Non-Coding RNAs.
JD104229 - Sequence 85253 from Patent EP1572962.
JD504988 - Sequence 486012 from Patent EP1572962.
JD294327 - Sequence 275351 from Patent EP1572962.
JD347713 - Sequence 328737 from Patent EP1572962.
JD181300 - Sequence 162324 from Patent EP1572962.
JD418199 - Sequence 399223 from Patent EP1572962.
JD259198 - Sequence 240222 from Patent EP1572962.
JD376857 - Sequence 357881 from Patent EP1572962.
JD122630 - Sequence 103654 from Patent EP1572962.
JD480565 - Sequence 461589 from Patent EP1572962.
JD108123 - Sequence 89147 from Patent EP1572962.
JD090923 - Sequence 71947 from Patent EP1572962.
JD197526 - Sequence 178550 from Patent EP1572962.
JD079171 - Sequence 60195 from Patent EP1572962.
JD285508 - Sequence 266532 from Patent EP1572962.
JD525547 - Sequence 506571 from Patent EP1572962.
JD116204 - Sequence 97228 from Patent EP1572962.
JD426031 - Sequence 407055 from Patent EP1572962.
JD255881 - Sequence 236905 from Patent EP1572962.
JD247590 - Sequence 228614 from Patent EP1572962.
JD463318 - Sequence 444342 from Patent EP1572962.
JD337755 - Sequence 318779 from Patent EP1572962.
JD414571 - Sequence 395595 from Patent EP1572962.
JD524776 - Sequence 505800 from Patent EP1572962.
JD352573 - Sequence 333597 from Patent EP1572962.
JD239052 - Sequence 220076 from Patent EP1572962.
JD293253 - Sequence 274277 from Patent EP1572962.
JD428303 - Sequence 409327 from Patent EP1572962.
JD153606 - Sequence 134630 from Patent EP1572962.
JD326021 - Sequence 307045 from Patent EP1572962.
JD367301 - Sequence 348325 from Patent EP1572962.
JD501725 - Sequence 482749 from Patent EP1572962.
JD255813 - Sequence 236837 from Patent EP1572962.
JD402037 - Sequence 383061 from Patent EP1572962.
JD513343 - Sequence 494367 from Patent EP1572962.
JD072108 - Sequence 53132 from Patent EP1572962.
JD306852 - Sequence 287876 from Patent EP1572962.
JD415376 - Sequence 396400 from Patent EP1572962.
JD058771 - Sequence 39795 from Patent EP1572962.
JD307904 - Sequence 288928 from Patent EP1572962.
JD097011 - Sequence 78035 from Patent EP1572962.
JD536115 - Sequence 517139 from Patent EP1572962.
JD524322 - Sequence 505346 from Patent EP1572962.
JD048090 - Sequence 29114 from Patent EP1572962.
JD484095 - Sequence 465119 from Patent EP1572962.
JD552191 - Sequence 533215 from Patent EP1572962.
JD563576 - Sequence 544600 from Patent EP1572962.
JD166482 - Sequence 147506 from Patent EP1572962.
JD328713 - Sequence 309737 from Patent EP1572962.
LF369967 - JP 2014500723-A/177470: Polycomb-Associated Non-Coding RNAs.
JD077025 - Sequence 58049 from Patent EP1572962.
JD468332 - Sequence 449356 from Patent EP1572962.
JD043548 - Sequence 24572 from Patent EP1572962.
BC104466 - Homo sapiens chromosome 16 open reading frame 54, mRNA (cDNA clone MGC:129957 IMAGE:40032034), complete cds.
BC104467 - Homo sapiens chromosome 16 open reading frame 54, mRNA (cDNA clone MGC:129958 IMAGE:40032037), complete cds.
AY358833 - Homo sapiens clone DNA184132 PLTP9389 (UNQ9389) mRNA, complete cds.
JD485844 - Sequence 466868 from Patent EP1572962.
JD426025 - Sequence 407049 from Patent EP1572962.
JD456914 - Sequence 437938 from Patent EP1572962.
KJ895971 - Synthetic construct Homo sapiens clone ccsbBroadEn_05365 C16orf54 gene, encodes complete protein.
AB463508 - Synthetic construct DNA, clone: pF1KB7105, Homo sapiens C16orf54 gene for chromosome 16 open reading frame 54, without stop codon, in Flexi system.
JD534600 - Sequence 515624 from Patent EP1572962.
JD155711 - Sequence 136735 from Patent EP1572962.
JD365910 - Sequence 346934 from Patent EP1572962.
MA605544 - JP 2018138019-A/177470: Polycomb-Associated Non-Coding RNAs.
MA443483 - JP 2018138019-A/15409: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NJR6, CP054_HUMAN, NM_175900, NP_787096, Q6UWD8, Q8NAB0, UNQ9389/PRO34280
UCSC ID: uc002dtp.2
RefSeq Accession: NM_175900
Protein: Q6UWD8 (aka CP054_HUMAN)
CCDS: CCDS10652.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_175900.3
exon count: 2CDS single in 3' UTR: no RNA size: 2686
ORF size: 675CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1550.00frame shift in genome: no % Coverage: 96.65
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.