Gene loci information

Transcript annotation

  • This transcript has been annotated as TATA box-binding protein-like protein 1.

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_1 g13103 g13103.t1 TTS g13103.t1 27951358 27951358
chr_1 g13103 g13103.t1 isoform g13103.t1 27951725 27952964
chr_1 g13103 g13103.t1 exon g13103.t1.exon1 27951725 27952119
chr_1 g13103 g13103.t1 cds g13103.t1.CDS1 27951725 27952119
chr_1 g13103 g13103.t1 exon g13103.t1.exon2 27952176 27952466
chr_1 g13103 g13103.t1 cds g13103.t1.CDS2 27952176 27952466
chr_1 g13103 g13103.t1 exon g13103.t1.exon3 27952523 27952964
chr_1 g13103 g13103.t1 cds g13103.t1.CDS3 27952523 27952964
chr_1 g13103 g13103.t1 TSS g13103.t1 NA NA

Sequences

>g13103.t1 Gene=g13103 Length=1128
ATGACAACAGTTTCAGCAACAATGCCTCCACCTCTCATACTTTATAATCAACCCCATCAA
ACTTCATCGCTTTATACAAATACTTTAAGCAATACAAATGTAGTTGCTAGTCGTCAATCG
CAACAGCAACAACAGAAATCTACCGAAGGTGCCACTATCATTCAAAGTGTCGAGTCAAAT
ATAAACGATGCCCAACAAACAACGACTGTAGAGGAAACAACAGTAGCAAATGTAGAAGAA
GAAACCGCTGTTGAAGAAGAAAGTGAAGAGCCAGAGATTGATATTGTCATAAGTAATGTT
GTATGTGCGTTTAGTGTTCGATGTCATCTATCATTGAAACATATTGCACTACAAGGCGCA
AATGTAGAATTTAAACGTGAAAACGGTATGGTAACAATGAAACTTCGAAAACCATACACG
ACTGCATCAATCTGGTCATCAGGTAAAATAACTTGCACAGGTGCTACTTCAGAAGAACAG
GCAAAAATTGCAGCACGTCGCTATGCACGTATGCTTCAGAAACTCAATTTTCGTGTTCGC
TTTCAAAACTATCGCGTTGTGAATGTTTTGGGAACATGTAAAATGCCTTGGGCCATAAAA
ATTGTTCAGTTTTCGGAAAAGTACAAGAAAGAGGCAAGCTATGAGCCAGAATTACATCCG
GGCGTTACATATAATCTTAAAAATCCCACTGCCACACTAAAAATTTTCTCGACAGGAAGC
ATGACAGTGACAGCTCGAAGTGTTGCTGATGTGCAAGCAGCTATTGAACATATTTACCCG
CTCGTTTATGAATTCAAAAAGCCTCGAACTGAAGATACAGGTGTTGACAAAGAAGAAGAA
GTTTATGCAGATATTATTGAAACAGATATCGAAATGGACGATGATGATGATGATGAAGAT
GATGTGATTGAAGAAGATTCTTTGAATATCCCTGATTCTCCACCTCCACCTGCGAAAAAG
CAAAAAATTCGAGATATTTCACATCTTACTAAACGTTATAAGGGACCTCCAACAAAGAAA
GCACCACAGCAGAGACGAGGCTCAAAGCGTCCTCTTGGTAAAATGAATGATCCTAAGCAA
GATTTGATTTATGTAAGCGATGGTGATGTTGACGGTGATGATTTTTAA

>g13103.t1 Gene=g13103 Length=375
MTTVSATMPPPLILYNQPHQTSSLYTNTLSNTNVVASRQSQQQQQKSTEGATIIQSVESN
INDAQQTTTVEETTVANVEEETAVEEESEEPEIDIVISNVVCAFSVRCHLSLKHIALQGA
NVEFKRENGMVTMKLRKPYTTASIWSSGKITCTGATSEEQAKIAARRYARMLQKLNFRVR
FQNYRVVNVLGTCKMPWAIKIVQFSEKYKKEASYEPELHPGVTYNLKNPTATLKIFSTGS
MTVTARSVADVQAAIEHIYPLVYEFKKPRTEDTGVDKEEEVYADIIETDIEMDDDDDDED
DVIEEDSLNIPDSPPPPAKKQKIRDISHLTKRYKGPPTKKAPQQRRGSKRPLGKMNDPKQ
DLIYVSDGDVDGDDF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g13103.t1 CDD cd04517 TLF 93 264 5.71264E-88
16 g13103.t1 Gene3D G3DSA:3.30.310.10 - 99 265 2.9E-61
17 g13103.t1 Gene3D G3DSA:3.30.310.10 - 102 186 2.9E-61
13 g13103.t1 MobiDBLite mobidb-lite consensus disorder prediction 289 375 -
14 g13103.t1 MobiDBLite mobidb-lite consensus disorder prediction 289 307 -
15 g13103.t1 MobiDBLite mobidb-lite consensus disorder prediction 318 332 -
12 g13103.t1 MobiDBLite mobidb-lite consensus disorder prediction 333 347 -
3 g13103.t1 PANTHER PTHR10126 TATA-BOX BINDING PROTEIN 28 289 4.5E-120
4 g13103.t1 PANTHER PTHR10126:SF55 TATA BOX-BINDING PROTEIN-LIKE PROTEIN 1 28 289 4.5E-120
9 g13103.t1 PRINTS PR00686 Transcription initiation factor TFIID signature 97 112 2.7E-19
8 g13103.t1 PRINTS PR00686 Transcription initiation factor TFIID signature 139 157 2.7E-19
6 g13103.t1 PRINTS PR00686 Transcription initiation factor TFIID signature 186 202 2.7E-19
7 g13103.t1 PRINTS PR00686 Transcription initiation factor TFIID signature 210 225 2.7E-19
5 g13103.t1 PRINTS PR00686 Transcription initiation factor TFIID signature 229 245 2.7E-19
2 g13103.t1 Pfam PF00352 Transcription factor TFIID (or TATA-binding protein, TBP) 95 174 2.6E-22
1 g13103.t1 Pfam PF00352 Transcription factor TFIID (or TATA-binding protein, TBP) 184 264 5.8E-20
10 g13103.t1 SUPERFAMILY SSF55945 TATA-box binding protein-like 91 185 2.2E-26
11 g13103.t1 SUPERFAMILY SSF55945 TATA-box binding protein-like 180 268 1.54E-22

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

Pathway

  • This transcript belongs to the following pathways

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.

Raw TPM values