Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 2-oxoglutarate dehydrogenase, 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 g7800 g7800.t12 TSS g7800.t12 26172133 26172133
chr_2 g7800 g7800.t12 isoform g7800.t12 26172134 26176252
chr_2 g7800 g7800.t12 exon g7800.t12.exon1 26172134 26172602
chr_2 g7800 g7800.t12 exon g7800.t12.exon2 26175695 26176252
chr_2 g7800 g7800.t12 cds g7800.t12.CDS1 26175786 26176250
chr_2 g7800 g7800.t12 TTS g7800.t12 NA NA

Sequences

>g7800.t12 Gene=g7800 Length=1027
GTGAAGCGCAGCAAAAATCGCAATTTTTATACGCCGATAATTAGGTTCCATCAAGTTTCA
CTCAATTTAGCTCTTTTATAATCATTTAAATTATATAATAATCTTTGCAATGTGCTGTTT
GAGATAAATGTAGTTTAGTGAAGTTATTAACAGTGGGAAAAGTGAATTTATTTAGTGAAA
AATTGTCGAATGAAAATATTGCAAAATTTTCTATTTATTTTTAAAAAATTGAAAAATGAA
CATTTCGCGTAAAATAAAGACTCTGCTGATCAAATGAAGTGCTAAATAGTGTTTAAATGT
CATATATTATCATAATAAATCATTAGTTTATCAATGGAATAACTTTAAAGTGATAAATTT
GTGATTTTCAAAATACGCCGATAAATAGGTTCCTTTACCCTAATTCGATTTTTAAAAGAT
TATTGTTTTTGAAATGTTCTAACGGTCATCTGAAAAATAATGAAGCATTATAATCATCAC
AATTGTCTAATGATATTCATCGTTATAATTATCATTTAAAAAAATATAATTTTAATTAAA
AACTTTTTTTCAGACCACTCATGTACAAGCGTATTCGTCAAACTAAACCAGTTTTGGATC
TTTATGCAGAACAGTTGGTTAAAGAAGGCGTTGTTACAGTAGAAGAAGTAAAATCAGTCA
AAGACAAATATACCAAGATTTGTGAAGATGCTTTTGAGCAAGCAAAAGTAGAAACACATG
TTAAATATAAGGATTGGCTCGATTCTCCATGGTCAGGTTTCTTTGAAGGAAAGGATCCAT
TGAAAATGTCACCAACTGGTGTTCCAGAAGAAACTTTAATTCACATTGGTAACCGCTTCT
CTTCACCACCACCTAATGCAGCAGAATTCATCATTCATAAGGGTCTCTTGCGTGTATTGG
CGAGTCGCAAAGATATGGTTGACTCACGTGTTGTTGATTGGGCAATGGCTGAAGCTATGG
CTTTCGGTTCATTAATGCGAGAAGGAATTCACGTAAGATTATCAGGTCAAGATGTTGAAC
GTGGTAC

>g7800.t12 Gene=g7800 Length=155
MYKRIRQTKPVLDLYAEQLVKEGVVTVEEVKSVKDKYTKICEDAFEQAKVETHVKYKDWL
DSPWSGFFEGKDPLKMSPTGVPEETLIHIGNRFSSPPPNAAEFIIHKGLLRVLASRKDMV
DSRVVDWAMAEAMAFGSLMREGIHVRLSGQDVERG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g7800.t12 Gene3D G3DSA:3.40.50.970 - 1 58 0.0e+00
7 g7800.t12 Gene3D G3DSA:3.40.50.12470 - 65 155 0.0e+00
3 g7800.t12 PANTHER PTHR23152:SF7 2-OXOGLUTARATE DEHYDROGENASE, MITOCHONDRIAL 1 155 0.0e+00
4 g7800.t12 PANTHER PTHR23152 2-OXOGLUTARATE DEHYDROGENASE 1 155 0.0e+00
2 g7800.t12 Pfam PF00676 Dehydrogenase E1 component 1 52 0.0e+00
1 g7800.t12 Pfam PF02779 Transketolase, pyrimidine binding domain 125 155 3.1e-06
5 g7800.t12 SUPERFAMILY SSF52518 Thiamin diphosphate-binding fold (THDP-binding) 1 68 2.0e-07

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:0006099 tricarboxylic acid cycle BP
GO:0004591 oxoglutarate dehydrogenase (succinyl-transferring) activity MF
GO:0055114 NA NA
GO:0030976 thiamine pyrophosphate binding MF
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.

Raw TPM values