Human Gene TBX15 (ENST00000369429.5_13) from GENCODE V47lift37
  Description: T-box transcription factor 15, transcript variant 1 (from RefSeq NM_001330677.2)
Gencode Transcript: ENST00000369429.5_13
Gencode Gene: ENSG00000092607.15_14
Transcript (Including UTRs)
   Position: hg19 chr1:119,425,670-119,530,966 Size: 105,297 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr1:119,427,355-119,530,418 Size: 103,064 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq 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 (chr1:119,425,670-119,530,966)mRNA (may differ from genome)Protein (602 aa)
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-  Comments and Description Text from UniProtKB
  ID: TBX15_HUMAN
DESCRIPTION: RecName: Full=T-box transcription factor TBX15; Short=T-box protein 15; AltName: Full=T-box transcription factor TBX14; Short=T-box protein 14;
FUNCTION: Probable transcriptional regulator involved in the development of the skeleton of the limb, vertebral column and head. Acts by controlling the number of mesenchymal precursor cells and chondrocytes (By similarity).
SUBCELLULAR LOCATION: Nucleus (Potential).
DISEASE: Defects in TBX15 are the cause of Cousin syndrome (COUSS) [MIM:260660]; also known as craniofacial dysmorphism, hypoplasia of scapula and pelvis, and short stature. Cousin syndrome is defined as pelviscapular dysplasia with epiphyseal abnormalities, congenital dwarfism and facial dysmorphy (frontal bossing, hypertelorism, narrow palpebral fissures, deep set globes, strabismus, low-set posteriory rotated and unusually formed external ears, dysplasia of conchae, small chin, short neck with redundant skin folds, and a low hairline). Intelligence may vary from normal to moderately impaired. Radiographic features comprise aplasia of the body of the scapula, hypoplasia of the iliac bone, humeroradial synosthosis, dislocation of the femoral heads, and moderate brachydactyly.
SIMILARITY: Contains 1 T-box DNA-binding 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


-  MalaCards Disease Associations
  MalaCards Gene Search: TBX15
Diseases sorted by gene-association score: cousin syndrome* (1388), acromegaloid facial appearance syndrome (13), ulnar-mammary syndrome (7), strabismus (1)
* = Manually curated disease association

-  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: 36.23 RPKM in Muscle - Skeletal
Total median expression: 138.57 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -244.70548-0.447 Picture PostScript Text
3' UTR -469.001685-0.278 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
IPR008967 - p53-like_TF_DNA-bd
IPR001699 - TF_T-box
IPR018186 - TF_T-box_CS

Pfam Domains:
PF00907 - T-box

SCOP Domains:
81930 - Orange carotenoid protein, N-terminal domain
49417 - p53-like transcription factors

ModBase Predicted Comparative 3D Structure on Q96SF7
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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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000976 transcription regulatory region sequence-specific DNA binding
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001078 transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0001106 RNA polymerase II transcription corepressor activity
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0042803 protein homodimerization activity
GO:0046982 protein heterodimerization activity

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0048701 embryonic cranial skeleton morphogenesis
GO:0048704 embryonic skeletal system morphogenesis
GO:1903507 negative regulation of nucleic acid-templated transcription

Cellular Component:
GO:0005634 nucleus
GO:0070722 Tle3-Aes complex


-  Descriptions from all associated GenBank mRNAs
  AK127536 - Homo sapiens cDNA FLJ45629 fis, clone CHONS2000797, highly similar to T-box transcription factor TBX15.
BX537778 - Homo sapiens mRNA; cDNA DKFZp779A1451 (from clone DKFZp779A1451).
AK096396 - Homo sapiens cDNA FLJ39077 fis, clone NT2RP7017795, highly similar to TBX15 PROTEIN.
JD534680 - Sequence 515704 from Patent EP1572962.
JD302721 - Sequence 283745 from Patent EP1572962.
JD490581 - Sequence 471605 from Patent EP1572962.
JD089618 - Sequence 70642 from Patent EP1572962.
JD547515 - Sequence 528539 from Patent EP1572962.
JD238674 - Sequence 219698 from Patent EP1572962.
JD311755 - Sequence 292779 from Patent EP1572962.
JD073236 - Sequence 54260 from Patent EP1572962.
JD421090 - Sequence 402114 from Patent EP1572962.
JD048908 - Sequence 29932 from Patent EP1572962.
JD092814 - Sequence 73838 from Patent EP1572962.
JD367439 - Sequence 348463 from Patent EP1572962.
JD097870 - Sequence 78894 from Patent EP1572962.
JD372463 - Sequence 353487 from Patent EP1572962.
JD062995 - Sequence 44019 from Patent EP1572962.
JD062512 - Sequence 43536 from Patent EP1572962.
JD328398 - Sequence 309422 from Patent EP1572962.
JD231841 - Sequence 212865 from Patent EP1572962.
JD347296 - Sequence 328320 from Patent EP1572962.
JD066727 - Sequence 47751 from Patent EP1572962.
JD157876 - Sequence 138900 from Patent EP1572962.
JD156311 - Sequence 137335 from Patent EP1572962.
JD416116 - Sequence 397140 from Patent EP1572962.
JD525495 - Sequence 506519 from Patent EP1572962.
JD290077 - Sequence 271101 from Patent EP1572962.
JD494686 - Sequence 475710 from Patent EP1572962.
JD269988 - Sequence 251012 from Patent EP1572962.
JD049436 - Sequence 30460 from Patent EP1572962.
JD419052 - Sequence 400076 from Patent EP1572962.
JD377836 - Sequence 358860 from Patent EP1572962.
JD363096 - Sequence 344120 from Patent EP1572962.
JD288265 - Sequence 269289 from Patent EP1572962.
JD357712 - Sequence 338736 from Patent EP1572962.
JD110268 - Sequence 91292 from Patent EP1572962.
JD239129 - Sequence 220153 from Patent EP1572962.
JD083569 - Sequence 64593 from Patent EP1572962.
JD509346 - Sequence 490370 from Patent EP1572962.
JD146657 - Sequence 127681 from Patent EP1572962.
JD321386 - Sequence 302410 from Patent EP1572962.
JD240003 - Sequence 221027 from Patent EP1572962.
JD411621 - Sequence 392645 from Patent EP1572962.
JD130377 - Sequence 111401 from Patent EP1572962.
JD121438 - Sequence 102462 from Patent EP1572962.
JD354541 - Sequence 335565 from Patent EP1572962.
JD139646 - Sequence 120670 from Patent EP1572962.
BC122553 - Homo sapiens T-box 15, mRNA (cDNA clone MGC:141832 IMAGE:40077247), complete cds.
JD448031 - Sequence 429055 from Patent EP1572962.
JD248404 - Sequence 229428 from Patent EP1572962.
KJ897641 - Synthetic construct Homo sapiens clone ccsbBroadEn_07035 TBX15 gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000369429.1, ENST00000369429.2, ENST00000369429.3, ENST00000369429.4, NM_001330677, Q08E76, Q5JT54, Q5T9S7, Q96SF7, TBX14, TBX15_HUMAN, uc318hok.1, uc318hok.2
UCSC ID: ENST00000369429.5_13
RefSeq Accession: NM_001330677.2
Protein: Q96SF7 (aka TBX15_HUMAN or TX15_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.