Human Gene TNRC18 (uc003soi.4) Description and Page Index
  Description: Homo sapiens trinucleotide repeat containing 18 (TNRC18), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr7:5,346,423-5,463,177 Size: 116,755 Total Exon Count: 30 Strand: -
Coding Region
   Position: hg19 chr7:5,347,737-5,460,877 Size: 113,141 Coding Exon Count: 29 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:5,346,423-5,463,177)mRNA (may differ from genome)Protein (2968 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: TNC18_HUMAN
DESCRIPTION: RecName: Full=Trinucleotide repeat-containing gene 18 protein; AltName: Full=Long CAG trinucleotide repeat-containing gene 79 protein;
SIMILARITY: Contains 1 BAH domain.
SEQUENCE CAUTION: Sequence=BAB55047.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): TNRC18
CDC HuGE Published Literature: TNRC18
Positive Disease Associations: Albumins , Myocardial Infarction
Related Studies:
  1. Albumins
    , , . [PubMed 0]
  2. Myocardial Infarction
    , , . [PubMed 0]

-  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: 22.60 RPKM in Uterus
Total median expression: 569.91 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 -202.50349-0.580 Picture PostScript Text
3' UTR -519.411314-0.395 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
IPR001025 - BAH_dom

Pfam Domains:
PF01426 - BAH domain

ModBase Predicted Comparative 3D Structure on O15417
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 orthologGenome BrowserNo orthologNo orthologNo ortholog
      
      
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000976 transcription regulatory region sequence-specific DNA binding
GO:0003682 chromatin binding

Biological Process:
GO:0006342 chromatin silencing
GO:0031507 heterochromatin assembly

Cellular Component:
GO:0000785 chromatin
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005677 chromatin silencing complex
GO:0005739 mitochondrion
GO:0005829 cytosol
GO:0031965 nuclear membrane


-  Descriptions from all associated GenBank mRNAs
  LF384068 - JP 2014500723-A/191571: Polycomb-Associated Non-Coding RNAs.
AB058759 - Homo sapiens mRNA for KIAA1856 protein, partial cds.
AK027341 - Homo sapiens cDNA FLJ14435 fis, clone HEMBA1007085.
BC131808 - Homo sapiens trinucleotide repeat containing 18, mRNA (cDNA clone IMAGE:40120247), partial cds.
MA619645 - JP 2018138019-A/191571: Polycomb-Associated Non-Coding RNAs.
JD038338 - Sequence 19362 from Patent EP1572962.
JD339827 - Sequence 320851 from Patent EP1572962.
JD442042 - Sequence 423066 from Patent EP1572962.
JD204876 - Sequence 185900 from Patent EP1572962.
JD549531 - Sequence 530555 from Patent EP1572962.
JD298902 - Sequence 279926 from Patent EP1572962.
JD233824 - Sequence 214848 from Patent EP1572962.
JD115781 - Sequence 96805 from Patent EP1572962.
JD097556 - Sequence 78580 from Patent EP1572962.
JD252948 - Sequence 233972 from Patent EP1572962.
JD415763 - Sequence 396787 from Patent EP1572962.
JD159273 - Sequence 140297 from Patent EP1572962.
JD207304 - Sequence 188328 from Patent EP1572962.
JD269886 - Sequence 250910 from Patent EP1572962.
JD059241 - Sequence 40265 from Patent EP1572962.
JD534352 - Sequence 515376 from Patent EP1572962.
JD058431 - Sequence 39455 from Patent EP1572962.
JD409188 - Sequence 390212 from Patent EP1572962.
JD496842 - Sequence 477866 from Patent EP1572962.
JD453125 - Sequence 434149 from Patent EP1572962.
JD134780 - Sequence 115804 from Patent EP1572962.
JD129182 - Sequence 110206 from Patent EP1572962.
JD400533 - Sequence 381557 from Patent EP1572962.
JD217141 - Sequence 198165 from Patent EP1572962.
JD232592 - Sequence 213616 from Patent EP1572962.
DL492321 - Novel nucleic acids.
DL490813 - Novel nucleic acids.
JD334626 - Sequence 315650 from Patent EP1572962.
JD454256 - Sequence 435280 from Patent EP1572962.
JD329034 - Sequence 310058 from Patent EP1572962.
JD510449 - Sequence 491473 from Patent EP1572962.
JD520758 - Sequence 501782 from Patent EP1572962.
JD105214 - Sequence 86238 from Patent EP1572962.
JD128433 - Sequence 109457 from Patent EP1572962.
JD128432 - Sequence 109456 from Patent EP1572962.
JD416992 - Sequence 398016 from Patent EP1572962.
JD062210 - Sequence 43234 from Patent EP1572962.
JD398485 - Sequence 379509 from Patent EP1572962.
U80753 - Homo sapiens CAGL79 mRNA, partial cds.
LF360065 - JP 2014500723-A/167568: Polycomb-Associated Non-Coding RNAs.
LF360066 - JP 2014500723-A/167569: Polycomb-Associated Non-Coding RNAs.
BC068099 - Homo sapiens cDNA clone IMAGE:6342049, partial cds.
LF360069 - JP 2014500723-A/167572: Polycomb-Associated Non-Coding RNAs.
LF360070 - JP 2014500723-A/167573: Polycomb-Associated Non-Coding RNAs.
LF360071 - JP 2014500723-A/167574: Polycomb-Associated Non-Coding RNAs.
LF360073 - JP 2014500723-A/167576: Polycomb-Associated Non-Coding RNAs.
LF360074 - JP 2014500723-A/167577: Polycomb-Associated Non-Coding RNAs.
LF360075 - JP 2014500723-A/167578: Polycomb-Associated Non-Coding RNAs.
LF360076 - JP 2014500723-A/167579: Polycomb-Associated Non-Coding RNAs.
DQ598529 - Homo sapiens piRNA piR-36595, complete sequence.
JD170312 - Sequence 151336 from Patent EP1572962.
JD446617 - Sequence 427641 from Patent EP1572962.
JD481863 - Sequence 462887 from Patent EP1572962.
LF360077 - JP 2014500723-A/167580: Polycomb-Associated Non-Coding RNAs.
JD421196 - Sequence 402220 from Patent EP1572962.
JD199336 - Sequence 180360 from Patent EP1572962.
BC029940 - Homo sapiens trinucleotide repeat containing 18, mRNA (cDNA clone IMAGE:4385632).
BC036932 - Homo sapiens KIAA1856 protein, mRNA (cDNA clone IMAGE:5243719).
AY129022 - Homo sapiens clone FP18717 unknown mRNA.
LF207001 - JP 2014500723-A/14504: Polycomb-Associated Non-Coding RNAs.
BC140723 - Homo sapiens cDNA clone MGC:176400 IMAGE:9021591, complete cds.
LF211993 - JP 2014500723-A/19496: Polycomb-Associated Non-Coding RNAs.
MA595642 - JP 2018138019-A/167568: Polycomb-Associated Non-Coding RNAs.
MA595643 - JP 2018138019-A/167569: Polycomb-Associated Non-Coding RNAs.
MA595646 - JP 2018138019-A/167572: Polycomb-Associated Non-Coding RNAs.
MA595647 - JP 2018138019-A/167573: Polycomb-Associated Non-Coding RNAs.
MA595648 - JP 2018138019-A/167574: Polycomb-Associated Non-Coding RNAs.
MA595650 - JP 2018138019-A/167576: Polycomb-Associated Non-Coding RNAs.
MA595651 - JP 2018138019-A/167577: Polycomb-Associated Non-Coding RNAs.
MA595652 - JP 2018138019-A/167578: Polycomb-Associated Non-Coding RNAs.
MA595653 - JP 2018138019-A/167579: Polycomb-Associated Non-Coding RNAs.
MA595654 - JP 2018138019-A/167580: Polycomb-Associated Non-Coding RNAs.
MA442578 - JP 2018138019-A/14504: Polycomb-Associated Non-Coding RNAs.
MA447570 - JP 2018138019-A/19496: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A8MX41, CAGL79, KIAA1856, NM_001080495, NP_001073964, O15417, Q96JH1, Q96K91, TNC18_HUMAN
UCSC ID: uc003soi.4
RefSeq Accession: NM_001080495
Protein: O15417 (aka TNC18_HUMAN)
CCDS: CCDS47534.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001080495.2
exon count: 30CDS single in 3' UTR: no RNA size: 10586
ORF size: 8907CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 17298.00frame shift in genome: no % Coverage: 99.85
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.