Human Gene TBC1D15 (uc010stt.2)
  Description: Homo sapiens TBC1 domain family, member 15 (TBC1D15), transcript variant 2, mRNA.
RefSeq Summary (NM_001146214): This gene encodes a member of the Ras-like proteins in brain-GTPase activating protein superfamily that share a conserved Tre-2/Bub2/Cdc16 domain. The encoded protein interacts with Ras-like protein in brain 5A and may function as a regulator of intracellular trafficking. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Apr 2009].
Transcript (Including UTRs)
   Position: hg19 chr12:72,233,487-72,320,629 Size: 87,143 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr12:72,255,223-72,316,984 Size: 61,762 Coding Exon Count: 17 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:72,233,487-72,320,629)mRNA (may differ from genome)Protein (682 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsH-INV
HGNCLynxMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: J3KNI9_HUMAN
DESCRIPTION: SubName: Full=TBC1 domain family member 15;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): TBC1D15
CDC HuGE Published Literature: TBC1D15
Positive Disease Associations: Bipolar Disorder , Glucose , Platelet Aggregation
Related Studies:
  1. Bipolar Disorder
    , , . [PubMed 0]
  2. Glucose
    , , . [PubMed 0]
  3. Glucose
    , , . [PubMed 0]
           more ... click here to view the complete list

-  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: 11.83 RPKM in Adipose - Subcutaneous
Total median expression: 365.52 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 -41.10143-0.287 Picture PostScript Text
3' UTR -1209.373645-0.332 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
IPR021935 - DUF3548
IPR000195 - Rab-GTPase-TBC_dom

Pfam Domains:
PF00566 - Rab-GTPase-TBC domain
PF12068 - Domain of unknown function (DUF3548)

SCOP Domains:
47923 - Ypt/Rab-GAP domain of gyp1p

ModBase Predicted Comparative 3D Structure on J3KNI9
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     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK307922 - Homo sapiens cDNA, FLJ97870.
AK297626 - Homo sapiens cDNA FLJ58591 complete cds, highly similar to TBC1 domain family member 15.
AK022147 - Homo sapiens cDNA FLJ12085 fis, clone HEMBB1002510, weakly similar to GYP7 PROTEIN.
BC028352 - Homo sapiens TBC1 domain family, member 15, mRNA (cDNA clone MGC:26036 IMAGE:4827246), complete cds.
LP895252 - Sequence 116 from Patent EP3253886.
AK225747 - Homo sapiens mRNA for TBC1 domain family, member 15 variant, clone: TST07950.
AL833639 - Homo sapiens mRNA; cDNA DKFZp686M1379 (from clone DKFZp686M1379).
AK292306 - Homo sapiens cDNA FLJ77374 complete cds.
AK225221 - Homo sapiens mRNA for TBC1 domain family, member 15 variant, clone: COL08919.
KJ903100 - Synthetic construct Homo sapiens clone ccsbBroadEn_12494 TBC1D15 gene, encodes complete protein.
JF432860 - Synthetic construct Homo sapiens clone IMAGE:100074182 TBC1 domain family, member 15 (TBC1D15) gene, encodes complete protein.
AB449901 - Homo sapiens TBC1D15 mRNA for TBC1 domain family, member 15, complete cds.
AL157464 - Homo sapiens mRNA; cDNA DKFZp761D0223 (from clone DKFZp761D0223).
JD019746 - Sequence 770 from Patent EP1572962.
JD030751 - Sequence 11775 from Patent EP1572962.
AK090510 - Homo sapiens cDNA FLJ33191 fis, clone ADRGL2005336.
JD539559 - Sequence 520583 from Patent EP1572962.
JD314626 - Sequence 295650 from Patent EP1572962.
JD326125 - Sequence 307149 from Patent EP1572962.
JD501581 - Sequence 482605 from Patent EP1572962.
JD300913 - Sequence 281937 from Patent EP1572962.
JD565586 - Sequence 546610 from Patent EP1572962.
JD561006 - Sequence 542030 from Patent EP1572962.
JD213339 - Sequence 194363 from Patent EP1572962.
JD070104 - Sequence 51128 from Patent EP1572962.
JD070105 - Sequence 51129 from Patent EP1572962.
L13713 - Human scRNA molecule, transcribed from Alu repeat.
L13714 - Human scRNA molecule, transcribed from Alu repeat.
JD175776 - Sequence 156800 from Patent EP1572962.
JD332129 - Sequence 313153 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: J3KNI9, J3KNI9_HUMAN, NM_001146214, NP_001139686
UCSC ID: uc010stt.2
RefSeq Accession: NM_001146214
Protein: J3KNI9 CCDS: CCDS55849.1, CCDS31858.1, CCDS53814.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001146214.1
exon count: 18CDS single in 3' UTR: no RNA size: 5852
ORF size: 2049CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3767.00frame shift in genome: no % Coverage: 99.74
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.