Human Gene BTF3 (ENST00000380591.8_6) from GENCODE V47lift37
  Description: basic transcription factor 3, transcript variant 3 (from RefSeq NM_001393652.1)
Gencode Transcript: ENST00000380591.8_6
Gencode Gene: ENSG00000145741.17_14
Transcript (Including UTRs)
   Position: hg19 chr5:72,794,267-72,801,492 Size: 7,226 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr5:72,794,493-72,801,063 Size: 6,571 Coding Exon Count: 6 

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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 (chr5:72,794,267-72,801,492)mRNA (may differ from genome)Protein (206 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsHGNC
MalacardsMGIPubMedUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: BTF3_HUMAN
DESCRIPTION: RecName: Full=Transcription factor BTF3; AltName: Full=RNA polymerase B transcription factor 3;
FUNCTION: General transcription factor. BTF3 can form a stable complex with RNA polymerase II. Required for the initiation of transcription.
INTERACTION: P03372:ESR1; NbExp=5; IntAct=EBI-1054703, EBI-78473;
SUBCELLULAR LOCATION: Nucleus.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
SIMILARITY: Belongs to the NAC-beta family.
SIMILARITY: Contains 1 NAC-A/B (NAC-alpha/beta) 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: BTF3
Diseases sorted by gene-association score: deafness, autosomal recessive 49 (2), nonsyndromic deafness (2)

-  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: 497.84 RPKM in Ovary
Total median expression: 11523.92 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 -87.20226-0.386 Picture PostScript Text
3' UTR -83.90429-0.196 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
IPR002715 - Nas_poly-pep-assoc_cplx

Pfam Domains:
PF01849 - NAC domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3LKX - X-ray MuPIT 3MCB - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P20290
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 Gene Details  
Gene SorterGene Sorter Gene Sorter  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding

Biological Process:
GO:0001701 in utero embryonic development
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0015031 protein transport

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AK310919 - Homo sapiens cDNA, FLJ17961.
AK225964 - Homo sapiens mRNA for Transcription factor BTF3 variant, clone: FCC114C01.
AK291125 - Homo sapiens cDNA FLJ76397 complete cds, highly similar to Homo sapiens basic transcription factor 3 (BTF3), mRNA.
BC061913 - Homo sapiens basic transcription factor 3, mRNA (cDNA clone IMAGE:4182376), with apparent retained intron.
AB062126 - Homo sapiens OK/SW-cl.8 mRNA for transcription factor BTF 3, complete cds.
X74070 - H.sapiens mRNA for transcription factor BTF 3.
BC008062 - Homo sapiens basic transcription factor 3, mRNA (cDNA clone MGC:2209 IMAGE:2966788), complete cds.
JD196610 - Sequence 177634 from Patent EP1572962.
X53280 - H.sapiens BTF3a mRNA.
X53281 - H.sapiens BTF3b mRNA.
AB463433 - Synthetic construct DNA, clone: pF1KB8199, Homo sapiens BTF3 gene for basic transcription factor 3, without stop codon, in Flexi system.
BT007120 - Homo sapiens basic transcription factor 3 mRNA, complete cds.
DQ892976 - Synthetic construct clone IMAGE:100005606; FLH191337.01X; RZPDo839C0277D basic transcription factor 3 (BTF3) gene, encodes complete protein.
DQ896224 - Synthetic construct Homo sapiens clone IMAGE:100010684; FLH191333.01L; RZPDo839C0267D basic transcription factor 3 (BTF3) gene, encodes complete protein.
KJ890784 - Synthetic construct Homo sapiens clone ccsbBroadEn_00178 BTF3 gene, encodes complete protein.
JD042806 - Sequence 23830 from Patent EP1572962.
JD559964 - Sequence 540988 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K510, BTF3_HUMAN, ENST00000380591.1, ENST00000380591.2, ENST00000380591.3, ENST00000380591.4, ENST00000380591.5, ENST00000380591.6, ENST00000380591.7, NACB, NM_001393652, OK/SW-cl.8, P20290, Q13893, Q76M56, uc318prx.1, uc318prx.2
UCSC ID: ENST00000380591.8_6
RefSeq Accession: NM_001037637.2
Protein: P20290 (aka BTF3_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.