Gene loci information

Transcript annotation

  • This transcript has been annotated as Isovaleryl-CoA 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 g7635 g7635.t2 isoform g7635.t2 25022756 25025451
chr_2 g7635 g7635.t2 exon g7635.t2.exon1 25022756 25022812
chr_2 g7635 g7635.t2 cds g7635.t2.CDS1 25022756 25022812
chr_2 g7635 g7635.t2 exon g7635.t2.exon2 25022889 25023042
chr_2 g7635 g7635.t2 cds g7635.t2.CDS2 25022889 25023042
chr_2 g7635 g7635.t2 exon g7635.t2.exon3 25023098 25023573
chr_2 g7635 g7635.t2 cds g7635.t2.CDS3 25023098 25023573
chr_2 g7635 g7635.t2 exon g7635.t2.exon4 25025311 25025451
chr_2 g7635 g7635.t2 cds g7635.t2.CDS4 25025311 25025340
chr_2 g7635 g7635.t2 TTS g7635.t2 25026394 25026394
chr_2 g7635 g7635.t2 TSS g7635.t2 NA NA

Sequences

>g7635.t2 Gene=g7635 Length=828
ATGACACATTATCCAATCGACGATACATTATTTGGATTGACTGAGGAGCAAAGTGGTTTA
CGTCAAACAGTTTTCAATTTTGCTCAAAAAGAGTTGGCTCCTTATGCACAAGAAATTGAC
AAAAATAATGAATTCAAAGATTTGAGAAATTTTTGGAAGAAACTCGGTTCAATGGGATTT
CTTGGTATCACTGCAAAACCAGAATATGGGGGCACTGGTGGCACATATCTTGATCATGTC
ATAATTATTGAAGAATTGGCACGTGCATCAGCATCCATCGCACTCTCATATGGTGCACAT
TCAAATCTTTGTGTAAATCAAATTCATCGAAATGGTAATGAAGAGCAAAAGCTCAAATAT
TTGCCAAAATTATGTTCAGGAGAACATATTGGAGCGCTTGCAATGTCAGAATCAGGCAGT
GGATCAGATGTCGTTTCAATGAAATTAAAAGCAGAAAAAGATGGCAATCATTACATATTA
AATGGTAGCAAATTTTGGATTACAAATGGACCTGATGCTGATATTATTGTTGTTTATGCC
AAAACAAATCAAAAAGTTTCACCACAGCATGGCATCACTGCTTTCATTGTTGAAAAAGGA
TTTGAAGGATTCAGTACGGGACCAAAACTTGATAAACTCGGACATAGAGGTTCAAATACA
AGTGAATTAATTTTCCAGGATTGCAAATTTTGCAGTGATACCAAGAAATCCCATTGAACC
GAGTTTCTTCCAAAAATTTCTCAAATCTTTGAATTCATTATTTTTGTCAATCTCTTGTGC
ATAAGGAGCCAACTCTTTTTGAGCAAAATTGAAAGCTGTTTGACGCAA

>g7635.t2 Gene=g7635 Length=238
MTHYPIDDTLFGLTEEQSGLRQTVFNFAQKELAPYAQEIDKNNEFKDLRNFWKKLGSMGF
LGITAKPEYGGTGGTYLDHVIIIEELARASASIALSYGAHSNLCVNQIHRNGNEEQKLKY
LPKLCSGEHIGALAMSESGSGSDVVSMKLKAEKDGNHYILNGSKFWITNGPDADIIVVYA
KTNQKVSPQHGITAFIVEKGFEGFSTGPKLDKLGHRGSNTSELIFQDCKFCSDTKKSH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g7635.t2 Gene3D G3DSA:1.10.540.10 - 2 130 5.6E-44
8 g7635.t2 Gene3D G3DSA:2.40.110.10 - 131 235 8.8E-37
3 g7635.t2 PANTHER PTHR43884:SF12 ISOVALERYL-COA DEHYDROGENASE, MITOCHONDRIAL-RELATED 3 230 8.5E-111
4 g7635.t2 PANTHER PTHR43884 ACYL-COA DEHYDROGENASE 3 230 8.5E-111
2 g7635.t2 Pfam PF02771 Acyl-CoA dehydrogenase, N-terminal domain 14 128 2.5E-37
1 g7635.t2 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 132 228 1.6E-25
6 g7635.t2 ProSitePatterns PS00072 Acyl-CoA dehydrogenases signature 1. 134 146 -
5 g7635.t2 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 11 229 1.83E-73

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:0016627 oxidoreductase activity, acting on the CH-CH group of donors MF
GO:0050660 flavin adenine dinucleotide binding MF
GO:0003995 acyl-CoA dehydrogenase activity MF
GO:0055114 NA NA

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