Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial.

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 g5288 g5288.t5 isoform g5288.t5 8395370 8396548
chr_2 g5288 g5288.t5 exon g5288.t5.exon1 8395370 8395960
chr_2 g5288 g5288.t5 cds g5288.t5.CDS1 8395831 8395960
chr_2 g5288 g5288.t5 exon g5288.t5.exon2 8396020 8396322
chr_2 g5288 g5288.t5 cds g5288.t5.CDS2 8396020 8396129
chr_2 g5288 g5288.t5 exon g5288.t5.exon3 8396386 8396548
chr_2 g5288 g5288.t5 TSS g5288.t5 8397410 8397410
chr_2 g5288 g5288.t5 TTS g5288.t5 NA NA

Sequences

>g5288.t5 Gene=g5288 Length=1057
GTAATGTTGATAAAATCCTGGAACTACGTGCTCGTTTCAATAAGTCATTAGAAAAGTCTG
GAAAGAAATTGTCAATCAATGATTTTATTATTAAAGCTGTAGCAACTGCTTGCAGAAAAG
TTCCTGAATGCAATTCAGCATGGCTAGGAAATACTATTCGACAATTCGATTCAGTTGACG
TTTCAGTCGCTGTATCAACTGATAACGGATTGATCACGCCAATTGTATTTAGTGCTGATC
GTAAAGGAGTCGAAGCTATCTCAACAGATGTAAAGACACTTGCAGGAAAAGCTAGAGAAG
GAAAATTGCAACCACAAGAATTCCAGGGTGGCACTTTCACTGTTTCAAATCTCGGAATGT
TTGATGTTACTCATTTCTGTGCTATCATTAATCCACCACAATCGTGCATCTTGGCAGTTG
GTGGTAGTCAAAAACGTCTTGTTATTGACGAAAATTCTGAAAAGGGCTTCAAAGAAGCAA
CCTTTATCTCGGTGACTTTAAGTGCCGATCATAGAACAGTTGATGGAGCTGTTGGAGCCC
GTTGGTTGCAATATTTCAGAAAATATATGGAAGATCCTGCCACAATGTTACTGTAAATTT
AAATTAGGTTCTACTTCGATCCAAGTCATCTGAGCTGCTTATGCTTTGCAAAGTTTTATA
ATTTTATCATTTTCACACATAGGAGAAAAATTCATATTTTCAACAAAAAATTCTTTTTTC
GTTATAAAAATTTAATCATAATTGGTTTATCTATATTGTATGTAGAAAATGTTCTGCGCT
GGAGTGCAACTATAAAAAAAAGATTGATCTAAATTTAAGCACTGAACTGTACTCAATGAA
TCTGAAATAACAAAACAAGGAAAAAGCATCCTAACAAGTTGAAAGAACTTGATAAAAAAT
GTTTAAAAAAACATGAAAACGTTAGTTTAAAAATAAAATATAAATTATTCGAATGAAAAT
TTTTGCTATTACATAAACTTATATTTGCAGCTTACTGAAAAAAAAAATGCATTCCACTTT
AATATGAAAAGGAAAAAGAAAAAAAATCGAGGCCAAT

>g5288.t5 Gene=g5288 Length=79
MFDVTHFCAIINPPQSCILAVGGSQKRLVIDENSEKGFKEATFISVTLSADHRTVDGAVG
ARWLQYFRKYMEDPATMLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g5288.t5 Gene3D G3DSA:3.30.559.10 Chloramphenicol Acetyltransferase 1 78 0
2 g5288.t5 PANTHER PTHR43178 DIHYDROLIPOAMIDE ACETYLTRANSFERASE COMPONENT OF PYRUVATE DEHYDROGENASE COMPLEX 3 79 0
3 g5288.t5 PANTHER PTHR43178:SF1 DIHYDROLIPOYLLYSINE-RESIDUE ACETYLTRANSFERASE COMPONENT 3 OF PYRUVATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL 3 79 0
1 g5288.t5 Pfam PF00198 2-oxoacid dehydrogenases acyltransferase (catalytic domain) 1 79 0
4 g5288.t5 SUPERFAMILY SSF52777 CoA-dependent acyltransferases 1 79 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5288/g5288.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5288.t5.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016746 acyltransferase activity MF

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.

Raw TPM values