Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Transcription initiation factor TFIID subunit 11.

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 g7143 g7143.t5 TSS g7143.t5 21480257 21480257
chr_2 g7143 g7143.t5 isoform g7143.t5 21480376 21481029
chr_2 g7143 g7143.t5 exon g7143.t5.exon1 21480376 21480487
chr_2 g7143 g7143.t5 cds g7143.t5.CDS1 21480376 21480487
chr_2 g7143 g7143.t5 exon g7143.t5.exon2 21480547 21480810
chr_2 g7143 g7143.t5 cds g7143.t5.CDS2 21480547 21480810
chr_2 g7143 g7143.t5 exon g7143.t5.exon3 21480871 21481029
chr_2 g7143 g7143.t5 cds g7143.t5.CDS3 21480871 21481028
chr_2 g7143 g7143.t5 TTS g7143.t5 21481190 21481190

Sequences

>g7143.t5 Gene=g7143 Length=535
ATGGACTCAATTGACAAATTAGACCTTTTCCAATCACTAAAAGATGAATCATCTGACGAA
AAATATAAAATGCCAAATATCAAAAGTGAAGACGAGTCTGACAATAATGAAAACAATAAT
GATAACCAACACAATTCTGAAACTGAATATGAAGATTTAAGTTCTGCAATACCGAGTACT
TCTACAAACATATTTGATAAAGCATTCAAAAAGAAGCTTGATAAACAAAATAGAAAAGAA
GTTGAGGAAGAAGAACGTGAAAAGATGCTTGCTCTAGTATCTAACTTTACAGAAGCACAG
CTAGATCGATATGAAATGTATAGAAGGGCAGCATTTCCTAAAGCTCCAGTAAAAAGACTA
ATGCAAACAATTACAGGATGCTCTGTCTCACAAAATGTTGTAATAGCTATGAGTGGTATC
GCAAAAGTATTTGTCGGAGAAGTTGTTGAAGAAGCATTAGATGTTGCAGAAAGCTGGAAT
GATACAGGACCACTTCAACCCAAGCATTTACGAGAAGCTGTACGACGATTAAAAA

>g7143.t5 Gene=g7143 Length=178
MDSIDKLDLFQSLKDESSDEKYKMPNIKSEDESDNNENNNDNQHNSETEYEDLSSAIPST
STNIFDKAFKKKLDKQNRKEVEEEEREKMLALVSNFTEAQLDRYEMYRRAAFPKAPVKRL
MQTITGCSVSQNVVIAMSGIAKVFVGEVVEEALDVAESWNDTGPLQPKHLREAVRRLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g7143.t5 CDD cd08048 TAF11 96 178 2.22491E-51
6 g7143.t5 Gene3D G3DSA:1.10.20.10 Histone 96 178 1.4E-37
4 g7143.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 48 -
5 g7143.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 59 -
2 g7143.t5 PANTHER PTHR13218 TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 11-RELATED 12 178 1.3E-51
1 g7143.t5 Pfam PF04719 hTAFII28-like protein conserved region 92 176 2.2E-38
3 g7143.t5 SUPERFAMILY SSF47113 Histone-fold 96 178 5.03E-35

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:0005634 nucleus CC
GO:0046982 protein heterodimerization activity MF
GO:0006367 transcription initiation from RNA polymerase II promoter 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