Human Gene TBPL2 (ENST00000247219.6_9) from GENCODE V47lift37
  Description: TATA-box binding protein like 2 (from RefSeq NM_199047.3)
Gencode Transcript: ENST00000247219.6_9
Gencode Gene: ENSG00000182521.6_14
Transcript (Including UTRs)
   Position: hg19 chr14:55,880,928-55,907,334 Size: 26,407 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr14:55,881,097-55,907,167 Size: 26,071 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:55,880,928-55,907,334)mRNA (may differ from genome)Protein (343 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TBPL2_HUMAN
DESCRIPTION: RecName: Full=TATA box-binding protein-like protein 2; Short=TBP-like protein 2; AltName: Full=TATA box-binding protein-related factor 3; Short=TBP-related factor 3;
FUNCTION: Transcription factor required in complex with TAF3 for the differentiation of myoblasts into myocytes. The complex replaces TFIID at specific promoters at an early stage in the differentiation process (By similarity).
SUBUNIT: Interacts with TAF3 (By similarity).
SUBCELLULAR LOCATION: Cytoplasm. Nucleus. Note=Present in the cytoplasm during cytokenesis.
TISSUE SPECIFICITY: Ubiquitously expressed in all tissues examined with highest levels in heart, lung, ovary, spleen and testes.
SIMILARITY: Belongs to the TBP family.

-  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: TBPL2
Diseases sorted by gene-association score: retinitis pigmentosa 18 (5)

-  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: 0.12 RPKM in Testis
Total median expression: 0.18 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 -60.80167-0.364 Picture PostScript Text
3' UTR -31.00169-0.183 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
IPR012295 - Beta2_adaptin/TBP_C_dom
IPR000814 - TBP

Pfam Domains:
PF00352 - Transcription factor TFIID (or TATA-binding protein, TBP)

SCOP Domains:
55945 - TATA-box binding protein-like
160574 - BT0923-like

ModBase Predicted Comparative 3D Structure on Q6SJ96
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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006352 DNA-templated transcription, initiation
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0007275 multicellular organism development
GO:0045892 negative regulation of transcription, DNA-templated

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AY457923 - Homo sapiens TBP-related factor 3 (TRF3) mRNA, complete cds.
DQ448593 - Homo sapiens TATA box binding protein like 2 mRNA, complete cds.
BC117185 - Homo sapiens TATA box binding protein like 2, mRNA (cDNA clone MGC:150794 IMAGE:40125736), complete cds.
BC117159 - Homo sapiens TATA box binding protein like 2, mRNA (cDNA clone MGC:150768 IMAGE:40125710), complete cds.
HQ258397 - Synthetic construct Homo sapiens clone IMAGE:100072826 TATA box binding protein like 2 (TBPL2) gene, encodes complete protein.
KJ905665 - Synthetic construct Homo sapiens clone ccsbBroadEn_15317 TBPL2-like gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000247219.1, ENST00000247219.2, ENST00000247219.3, ENST00000247219.4, ENST00000247219.5, NM_199047, Q17RU8, Q6SJ96, TBP2, TBPL2 , TBPL2_HUMAN, TRF3 , uc317evi.1, uc317evi.2
UCSC ID: ENST00000247219.6_9
RefSeq Accession: NM_199047.3
Protein: Q6SJ96 (aka TBPL2_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.