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 g7636 g7636.t6 TTS g7636.t6 25024224 25024224
chr_2 g7636 g7636.t6 isoform g7636.t6 25024272 25025633
chr_2 g7636 g7636.t6 exon g7636.t6.exon1 25024272 25025242
chr_2 g7636 g7636.t6 cds g7636.t6.CDS1 25024272 25025242
chr_2 g7636 g7636.t6 exon g7636.t6.exon2 25025298 25025633
chr_2 g7636 g7636.t6 cds g7636.t6.CDS2 25025298 25025337
chr_2 g7636 g7636.t6 TSS g7636.t6 25025699 25025699

Sequences

>g7636.t6 Gene=g7636 Length=1307
ATGTTGAAAAGTGCCACAAAATTGTTGAAATATGCATCAATCAGACCATGTCATGTTCGC
ACGATGACACATTATCCAATCGACGATGTAATGTTTGGATTGAATGAAGAGCAAATTGCT
GTAAGTAGTTGATAAATTTCACGATAAGACTATTTTTACATATCTGATTATGTCGTCATC
AGTTGCGTCAAACAGCTTTCAATTTTGCTCAAAAAGAGTTGGCTCCTTATGCACAAGAGA
TTGACAAAAATAATGAATTCAAAGATTTGAGAAATTTTTGGAAGAAACTCGGTTCAATGG
GATTTCTTGGTATCACTGCAAAACCAGAATATGGGGGCACTGGTGGCACATATCTTGATC
ATGTCATTATAAATGAGGAAATTTCACGTGCATCAGGTGCTATATCGCTCTCATATGGTG
CTCATTCAAATCTTTGTGTAAATCAAATTCATCGAAATGGTAATGAAGAGCAAAAACTCA
AATATTTGCCAAAATTATGTTCAGGCGACCATATTGGAGCGCTTGCAATGTCAGAATCAG
GTAGTGGATCAGATGTCGTTTCAATGAAATTAAAAGCAGAAAAAGATGGCAATCATTACA
TTTTAAATGGTAGCAAATTTTGGATTACAAATGGACCTGATGCTGATATTATTGTTGTTT
ATGCCAAAACAAATCAAAAAGTTTCACCACAGCATGGCATCACTGCTTTCATTGTTGAAA
AAGGATTTGAAGGATTCAGTACGGGACCAAAACTTGATAAACTTGGAATAAGAGGATCAA
GCACAGGCGAATTAATTTTCCAGGATTGCAAAGTGCCTGTAGAAAATGTTTTGGGACAAA
CAGAAAAAGGTGTTTATGTATTGATGAGTGGTTTAGATTATGAAAGAATGGTCTTGGCTT
CTGGGCCAATCGGATTGATGCAAGCAGCTTGTGATGTTTCATTTGCATATGCTCATCAAA
GAAAGCAATTCGGTGTAAGAATTGGTGAATTTCAATTAATTCAAGGAAAAATGGCTGATA
TGTATACAACACTTAATGCATGCAGAAGCTATTTATACAATGTTGCCAAAGCATGTGATC
TTGGAAAAACAAATCCAAAAGACTGTGCTGGTGTGATTTTGTATTGCGCAGAAAAAGCTA
CTCAACTTTGCTTAGATGCAATACAAATCTTAGGTGGAAATGGATACATAAACGATTTTC
CCACCGGAAGATTCTTGAGAGATGCAAAATTATATGAGATTGGTGCTGGAACAAGCGAAG
TCCGTCGCATGCTAATTGGACGTCAAATTAACAAAGAGTACAAGTAA

>g7636.t6 Gene=g7636 Length=336
MGFLGITAKPEYGGTGGTYLDHVIINEEISRASGAISLSYGAHSNLCVNQIHRNGNEEQK
LKYLPKLCSGDHIGALAMSESGSGSDVVSMKLKAEKDGNHYILNGSKFWITNGPDADIIV
VYAKTNQKVSPQHGITAFIVEKGFEGFSTGPKLDKLGIRGSSTGELIFQDCKVPVENVLG
QTEKGVYVLMSGLDYERMVLASGPIGLMQAACDVSFAYAHQRKQFGVRIGEFQLIQGKMA
DMYTTLNACRSYLYNVAKACDLGKTNPKDCAGVILYCAEKATQLCLDAIQILGGNGYIND
FPTGRFLRDAKLYEIGAGTSEVRRMLIGRQINKEYK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g7636.t6 CDD cd01156 IVD 1 333 0.0
10 g7636.t6 Gene3D G3DSA:1.10.540.10 - 1 73 5.3E-24
11 g7636.t6 Gene3D G3DSA:2.40.110.10 - 74 187 3.1E-44
12 g7636.t6 Gene3D G3DSA:1.20.140.10 - 188 331 2.7E-47
4 g7636.t6 PANTHER PTHR43884:SF12 ISOVALERYL-COA DEHYDROGENASE, MITOCHONDRIAL-RELATED 1 336 9.2E-178
5 g7636.t6 PANTHER PTHR43884 ACYL-COA DEHYDROGENASE 1 336 9.2E-178
3 g7636.t6 Pfam PF02771 Acyl-CoA dehydrogenase, N-terminal domain 1 71 5.0E-21
1 g7636.t6 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 75 171 1.2E-25
2 g7636.t6 Pfam PF00441 Acyl-CoA dehydrogenase, C-terminal domain 184 331 6.9E-41
9 g7636.t6 ProSitePatterns PS00072 Acyl-CoA dehydrogenases signature 1. 77 89 -
8 g7636.t6 ProSitePatterns PS00073 Acyl-CoA dehydrogenases signature 2. 290 309 -
6 g7636.t6 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 1 196 7.33E-70
7 g7636.t6 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 184 332 5.15E-45

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