Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable pyruvate dehydrogenase E1 component subunit alpha, 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_1 g9425 g9425.t10 TSS g9425.t10 2855702 2855702
chr_1 g9425 g9425.t10 isoform g9425.t10 2855799 2857514
chr_1 g9425 g9425.t10 exon g9425.t10.exon1 2855799 2855855
chr_1 g9425 g9425.t10 exon g9425.t10.exon2 2855922 2855960
chr_1 g9425 g9425.t10 exon g9425.t10.exon3 2856124 2856471
chr_1 g9425 g9425.t10 exon g9425.t10.exon4 2856640 2856803
chr_1 g9425 g9425.t10 cds g9425.t10.CDS1 2856754 2856803
chr_1 g9425 g9425.t10 exon g9425.t10.exon5 2856862 2857316
chr_1 g9425 g9425.t10 cds g9425.t10.CDS2 2856862 2857316
chr_1 g9425 g9425.t10 exon g9425.t10.exon6 2857456 2857514
chr_1 g9425 g9425.t10 cds g9425.t10.CDS3 2857456 2857514
chr_1 g9425 g9425.t10 TTS g9425.t10 2857573 2857573

Sequences

>g9425.t10 Gene=g9425 Length=1122
ATGATGCAAAATATTTCGAGAAATACATCAAAGTTATTATGGAGAAATGCTGGAATAAAA
AATTATGCAACAGAGGCAACTTTTGAAGTCAATCGGCCATATAAACTCCATCGTCTCGAT
TCTGGTCCATCAACAACTGTTTCAGTAACTCGTGATGAAGCACTTGATATGTATAGAAAA
ATGCAATCAATTCGTCGCCTTGAGACAAGTGCCGGTAACTTGTATAAGGAAAAGATTGTT
CGTGGATTCTGTCATTTGTATTCTGGTCAAGAGGCTGTTGCTGTTGGAATGAAAGCTTCG
ATGCGCGAACAAGACAATATTATTTCTGCATATCGTGTTCATGGTTGGACACATTTAATG
GGAGTGTCAGTAGCTGGCGTCTTGTCAGAATTGACTGGTAAAAAAGGTGGTTGTGCTCGT
GGAAAAGGCGGTTCAATGCATATGTAAAATATTTCAGGTGTTGCTTTTGCATGCAAATAC
AAAAACAATGGAGGTGTATGCTTGTCACTTTACGGAGATGGTGCATCAAATCAAGGACAA
GTTTTTGAAGCTTACAATATGGCTTATCTCTGGAAATTACCATGCATTTTCATTTGTGAA
AACAATGGATATGGCATGGGAACAAGTGCTGAACGTTCATCAAGCAATACAGAATATTAC
AAACGTGGTGATGTTTTGCCTGGCTTATGGATTGATGGTATGGATGTATTAGCTGTTAAA
GAAGGAACACGATTTGCAATTGATTATGTATTAAAAAATGGTCCTATTGTGATTGAAGCT
GCTACTTATCGTTATTCAGGCCATAGCATGTCTGATCCAGGCACAAGCTACAGATCACGT
GATGAAATTCAAGAAGTTCGTCAAAAACGTGATCCAATCACTTCATTTAAAGAGAGAATG
CTTGAGACTGGTTTAGCAACAGAAGCTGATATTAAGAAAATTGATAGTGAAGTTAAGAAA
GAAGTTGATGCAGCAACAGCACTTGCAAAGAGTGATACTGAAATCCCTGTATCAGAACTC
ACATGCGATATTTACTCCATGAATCAAGAGGGTGATGTGCATGGATTGACACCAGACAAA
AAGTTAAAGCACACAACACTCAAGACTGCTGTAAATCTTTAA

>g9425.t10 Gene=g9425 Length=187
MAYLWKLPCIFICENNGYGMGTSAERSSSNTEYYKRGDVLPGLWIDGMDVLAVKEGTRFA
IDYVLKNGPIVIEAATYRYSGHSMSDPGTSYRSRDEIQEVRQKRDPITSFKERMLETGLA
TEADIKKIDSEVKKEVDAATALAKSDTEIPVSELTCDIYSMNQEGDVHGLTPDKKLKHTT
LKTAVNL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g9425.t10 Gene3D G3DSA:3.40.50.970 - 1 180 0
2 g9425.t10 PANTHER PTHR11516:SF55 PYRUVATE DEHYDROGENASE E1 COMPONENT SUBUNIT ALPHA 1 181 0
3 g9425.t10 PANTHER PTHR11516 PYRUVATE DEHYDROGENASE E1 COMPONENT, ALPHA SUBUNIT BACTERIAL AND ORGANELLAR 1 181 0
1 g9425.t10 Pfam PF00676 Dehydrogenase E1 component 1 149 0
4 g9425.t10 SUPERFAMILY SSF52518 Thiamin diphosphate-binding fold (THDP-binding) 1 160 0

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:0016624 oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor 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. There were no conditions that were differentially expressed