Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t1 TTS g5288.t1 8395472 8395472
chr_2 g5288 g5288.t1 isoform g5288.t1 8395831 8397851
chr_2 g5288 g5288.t1 exon g5288.t1.exon1 8395831 8395960
chr_2 g5288 g5288.t1 cds g5288.t1.CDS1 8395831 8395960
chr_2 g5288 g5288.t1 exon g5288.t1.exon2 8396020 8396322
chr_2 g5288 g5288.t1 cds g5288.t1.CDS2 8396020 8396322
chr_2 g5288 g5288.t1 exon g5288.t1.exon3 8396386 8397160
chr_2 g5288 g5288.t1 cds g5288.t1.CDS3 8396386 8397160
chr_2 g5288 g5288.t1 exon g5288.t1.exon4 8397224 8397402
chr_2 g5288 g5288.t1 cds g5288.t1.CDS4 8397224 8397402
chr_2 g5288 g5288.t1 exon g5288.t1.exon5 8397730 8397851
chr_2 g5288 g5288.t1 cds g5288.t1.CDS5 8397730 8397851
chr_2 g5288 g5288.t1 TSS g5288.t1 8397962 8397962

Sequences

>g5288.t1 Gene=g5288 Length=1509
ATGTTCCGAACGATTGTTGTACGAAATGAGCGCTTGCTTCAGAGTTCTATTCGTCAATTT
AATAAAAATAATACAATTCGCTGCTTGTCATCGCAATGTTTCCAAAAAATTCAGATGACA
AGAAACTGCGTTCAAAAGACAAGAATTTTGCAACAACCAGCAACATGGAGAATTGGTTTT
AATCGATGCTATGCAGATGTACCCGATCACATAAAAGTCTTGTTGCCAGCACTGAGTCCG
ACCATGGAGATGGGAACAATTGTCAGTTGGGAAAAGAAAGAAGGCGATAAGTTGAATGAA
GGTGACTTGTTAGCTGAAATTGAAACTGACAAAGCAACAATGGGCTTTGAAACACCGGAA
GAAGGATATTTAGCAAAAATTCTTTATCCAGCTGGTTCAAAAGATATTCCAGTTGGCAAA
TTAGTCTGTATTATTGTCGAAAGTGAAGATGATGTTGCAGCTTTCAAAGACTTTAAAGAC
GATGGTTCAGCTACTTCTTCTTCTGCACCGAAAAAAGCAGTACCCGAGCCTGCTGCTGCT
TCAGCGCCAACGCCTGTTTCTGCTCCTTCATCTCCACTTCCAGCCGCAACTCGACCATCA
GGCGCAATCACTGCAAGTGAACAAAAATATGGTGATCGAGTTCTCGCTAGTCCAATGGCA
CGTCGTTTAGCTGAAGCACAAAAATTGCGCTTGGAAGGTCAAGGAAGTGGCCTTTATGGT
TCATTAACTTCAAAAGATCTTGGTGGATTACAAACTGAAGGAAGTGCTCCACAAATTTCA
TCAGCACAAGCACCTGTCATCCCACCAAGTCAAGCTTATATCGATATTCCAGTTTCAAAT
GTTCGTGGAGTTATCGCTAAACGTTTATTAGAATCAAAAGTTTCTATTCCGCATTATTAT
CTCACTGTAGATTGTAATGTTGATAAAATCCTGGAACTACGTGCTCGTTTCAATAAGTCA
TTAGAAAAGTCTGGAAAGAAATTGTCAATCAATGATTTTATTATTAAAGCTGTAGCAACT
GCTTGCAGAAAAGTTCCTGAATGCAATTCAGCATGGCTAGGAAATACTATTCGACAATTC
GATTCAGTTGACGTTTCAGTCGCTGTATCAACTGATAACGGATTGATCACGCCAATTGTA
TTTAGTGCTGATCGTAAAGGAGTCGAAGCTATCTCAACAGATGTAAAGACACTTGCAGGA
AAAGCTAGAGAAGGAAAATTGCAACCACAAGAATTCCAGGGTGGCACTTTCACTGTTTCA
AATCTCGGAATGTTTGATGTTACTCATTTCTGTGCTATCATTAATCCACCACAATCGTGC
ATCTTGGCAGTTGGTGGTAGTCAAAAACGTCTTGTTATTGACGAAAATTCTGAAAAGGGC
TTCAAAGAAGCAACCTTTATCTCGGTGACTTTAAGTGCCGATCATAGAACAGTTGATGGA
GCTGTTGGAGCCCGTTGGTTGCAATATTTCAGAAAATATATGGAAGATCCTGCCACAATG
TTACTGTAA

>g5288.t1 Gene=g5288 Length=502
MFRTIVVRNERLLQSSIRQFNKNNTIRCLSSQCFQKIQMTRNCVQKTRILQQPATWRIGF
NRCYADVPDHIKVLLPALSPTMEMGTIVSWEKKEGDKLNEGDLLAEIETDKATMGFETPE
EGYLAKILYPAGSKDIPVGKLVCIIVESEDDVAAFKDFKDDGSATSSSAPKKAVPEPAAA
SAPTPVSAPSSPLPAATRPSGAITASEQKYGDRVLASPMARRLAEAQKLRLEGQGSGLYG
SLTSKDLGGLQTEGSAPQISSAQAPVIPPSQAYIDIPVSNVRGVIAKRLLESKVSIPHYY
LTVDCNVDKILELRARFNKSLEKSGKKLSINDFIIKAVATACRKVPECNSAWLGNTIRQF
DSVDVSVAVSTDNGLITPIVFSADRKGVEAISTDVKTLAGKAREGKLQPQEFQGGTFTVS
NLGMFDVTHFCAIINPPQSCILAVGGSQKRLVIDENSEKGFKEATFISVTLSADHRTVDG
AVGARWLQYFRKYMEDPATMLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g5288.t1 CDD cd06849 lipoyl_domain 71 145 2.21312E-29
7 g5288.t1 Gene3D G3DSA:2.40.50.100 - 65 171 4.1E-37
8 g5288.t1 Gene3D G3DSA:3.30.559.10 Chloramphenicol Acetyltransferase 258 500 2.5E-93
11 g5288.t1 MobiDBLite mobidb-lite consensus disorder prediction 164 208 -
3 g5288.t1 PANTHER PTHR23151:SF9 DIHYDROLIPOYLLYSINE-RESIDUE ACETYLTRANSFERASE COMPONENT OF PYRUVATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL 37 502 5.2E-176
4 g5288.t1 PANTHER PTHR23151 DIHYDROLIPOAMIDE ACETYL/SUCCINYL-TRANSFERASE-RELATED 37 502 5.2E-176
1 g5288.t1 Pfam PF00364 Biotin-requiring enzyme 73 145 1.6E-16
2 g5288.t1 Pfam PF00198 2-oxoacid dehydrogenases acyltransferase (catalytic domain) 272 502 1.0E-77
10 g5288.t1 ProSitePatterns PS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site. 95 124 -
13 g5288.t1 ProSiteProfiles PS50968 Biotinyl/lipoyl domain profile. 70 146 26.451
5 g5288.t1 SUPERFAMILY SSF51230 Single hybrid motif 69 163 1.44E-25
6 g5288.t1 SUPERFAMILY SSF52777 CoA-dependent acyltransferases 265 502 5.78E-80
12 g5288.t1 TIGRFAM TIGR01349 PDHac_trf_mito: pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase 72 502 5.2E-164

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5288/g5288.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5288.t1.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0004742 dihydrolipoyllysine-residue acetyltransferase activity MF
GO:0045254 pyruvate dehydrogenase complex CC
GO:0016746 acyltransferase activity MF
GO:0006090 pyruvate metabolic process BP

KEGG

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