Gene loci information

Transcript annotation

  • This transcript has been annotated as TATA-box-binding protein.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_2 g6552 g6552.t4 TSS g6552.t4 17617999 17617999
chr_2 g6552 g6552.t4 isoform g6552.t4 17618388 17619099
chr_2 g6552 g6552.t4 exon g6552.t4.exon1 17618388 17619099
chr_2 g6552 g6552.t4 cds g6552.t4.CDS1 17618468 17618908
chr_2 g6552 g6552.t4 TTS g6552.t4 17619310 17619310

Sequences

>g6552.t4 Gene=g6552 Length=712
CTCAACAACAACCAGCCTCAGTTTCTGAAATTCCATCATCGATTCCAAAAGTTAATACAC
CGGCAATTGATGCAAGTCCTATGTTTATGAACCCAATGACTCCACTAGATTCATCTATCC
TTCCTCAATTACAAAATATTGTATCAACAGTTAATCTAAATTGCAAGCTTGATCTTAAAA
AAATTGCACTTCACGCGAGAAATGCAGAGTATAATCCAAAACGTTTTGCAGCCGTCATTA
TGAGAATTAGAGAACCAAGAACAACAGCCTTAATTTTTTCATCTGGTAAAATGGTGTGTA
CTGGAGCTAAAAGTGAAGATGATTCTCGATTAGCTGCAAGAAAATATGCTCGTATCATTC
AAAAGTTAGGCTTTAATGCCAAGTTTTTAGATTTTAAAATTCAGAATATGGTGGGTAGTT
GTGACGTTAAATTTCCTATTCGATTAGAAGGACTTGTGCTTACACATAGCAAGTTTAGCA
GTTACGAACCTGAATTGTTTCCTGGTTTAATTTACCGGTAAGTACTAAACTTTTAAAATA
AAGCGTTATATCTTTAATTCTGATTTTCTTTTATAGTATGGTGAAACCCAGAATAGTTTT
GCTGATATTTGTTAGTGGGAAAGTAGTATTGACTGGAGCAAAAGTTCGACAAGAAATATA
TGATGCATTTGATAATATTTTTCCTATTCTAAAATCATTCAAAAAATCTTAA

>g6552.t4 Gene=g6552 Length=146
MFMNPMTPLDSSILPQLQNIVSTVNLNCKLDLKKIALHARNAEYNPKRFAAVIMRIREPR
TTALIFSSGKMVCTGAKSEDDSRLAARKYARIIQKLGFNAKFLDFKIQNMVGSCDVKFPI
RLEGLVLTHSKFSSYEPELFPGLIYR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g6552.t4 CDD cd04516 TBP_eukaryotes 15 146 3.43066E-101
13 g6552.t4 Gene3D G3DSA:3.30.310.10 - 22 103 9.1E-44
14 g6552.t4 Gene3D G3DSA:3.30.310.10 - 104 146 3.7E-16
3 g6552.t4 PANTHER PTHR10126:SF37 TATA BOX-BINDING PROTEIN-LIKE PROTEIN 2 3 146 2.1E-104
4 g6552.t4 PANTHER PTHR10126 TATA-BOX BINDING PROTEIN 3 146 2.1E-104
5 g6552.t4 PRINTS PR00686 Transcription initiation factor TFIID signature 17 32 4.9E-56
6 g6552.t4 PRINTS PR00686 Transcription initiation factor TFIID signature 41 60 4.9E-56
9 g6552.t4 PRINTS PR00686 Transcription initiation factor TFIID signature 60 78 4.9E-56
8 g6552.t4 PRINTS PR00686 Transcription initiation factor TFIID signature 107 123 4.9E-56
7 g6552.t4 PRINTS PR00686 Transcription initiation factor TFIID signature 131 146 4.9E-56
2 g6552.t4 Pfam PF00352 Transcription factor TFIID (or TATA-binding protein, TBP) 16 95 4.7E-34
1 g6552.t4 Pfam PF00352 Transcription factor TFIID (or TATA-binding protein, TBP) 104 146 2.0E-12
12 g6552.t4 ProSitePatterns PS00351 Transcription factor TFIID repeat signature. 44 93 -
11 g6552.t4 SUPERFAMILY SSF55945 TATA-box binding protein-like 13 106 8.64E-36
10 g6552.t4 SUPERFAMILY SSF55945 TATA-box binding protein-like 98 146 7.07E-13

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0003677 DNA binding MF
GO:0006352 DNA-templated transcription, initiation BP

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed