Human Gene TBC1D15 (ENST00000485960.7_8) from GENCODE V47lift37
  Description: TBC1 domain family member 15, transcript variant 35 (from RefSeq NR_169788.1)
Gencode Transcript: ENST00000485960.7_8
Gencode Gene: ENSG00000121749.16_17
Transcript (Including UTRs)
   Position: hg19 chr12:72,233,539-72,318,093 Size: 84,555 Total Exon Count: 17 Strand: +
Coding Region
   Position: hg19 chr12:72,233,562-72,316,984 Size: 83,423 Coding Exon Count: 17 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene 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 (chr12:72,233,539-72,318,093)mRNA (may differ from genome)Protein (674 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGeneCardsHGNCMGI
PubMedReactomeUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: TBC15_HUMAN
DESCRIPTION: RecName: Full=TBC1 domain family member 15; AltName: Full=GTPase-activating protein RAB7; Short=GAP for RAB7; Short=Rab7-GAP;
FUNCTION: Acts as a GTPase activating protein for RAB7A. Does not act on RAB4, RAB5 or RAB6 (By similarity).
INTERACTION: O95166:GABARAP; NbExp=5; IntAct=EBI-1048247, EBI-712001; Q9H0R8:GABARAPL1; NbExp=2; IntAct=EBI-1048247, EBI-746969; P60520:GABARAPL2; NbExp=2; IntAct=EBI-1048247, EBI-720116; Q9GZQ8:MAP1LC3B; NbExp=2; IntAct=EBI-1048247, EBI-373144;
SUBCELLULAR LOCATION: Cytoplasm (By similarity).
SIMILARITY: Contains 1 Rab-GAP TBC domain.

-  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


-  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 -2.6023-0.113 Picture PostScript Text
3' UTR -219.501109-0.198 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 - Rab-binding domain (RBD)

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

ModBase Predicted Comparative 3D Structure on Q8TC07
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 BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005096 GTPase activator activity
GO:0005515 protein binding
GO:0017137 Rab GTPase binding

Biological Process:
GO:0006886 intracellular protein transport
GO:0031338 regulation of vesicle fusion
GO:0043087 regulation of GTPase activity
GO:0090630 activation of GTPase activity
GO:1902017 regulation of cilium assembly

Cellular Component:
GO:0005576 extracellular region
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0012505 endomembrane system


-  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.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DMT9, B9A6L6, ENST00000485960.1, ENST00000485960.2, ENST00000485960.3, ENST00000485960.4, ENST00000485960.5, ENST00000485960.6, J3KNI9, NR_169788, Q8TC07, Q9HA83, TBC15_HUMAN, uc322fxn.1, uc322fxn.2
UCSC ID: ENST00000485960.7_8
RefSeq Accession: NM_001146213.3
Protein: Q8TC07 (aka TBC15_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.