General information for g7636.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Isovaleryl-CoA dehydrogenase, mitochondrial.
Parent gene
- The parent gene g7636 is located on chr_2: 25025587..25026311 (- strand)
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.t1 | TTS | g7636.t1 | 25024224 | 25024224 |
| chr_2 | g7636 | g7636.t1 | isoform | g7636.t1 | 25024272 | 25025633 |
| chr_2 | g7636 | g7636.t1 | exon | g7636.t1.exon1 | 25024272 | 25025242 |
| chr_2 | g7636 | g7636.t1 | cds | g7636.t1.CDS1 | 25024272 | 25025242 |
| chr_2 | g7636 | g7636.t1 | exon | g7636.t1.exon2 | 25025298 | 25025451 |
| chr_2 | g7636 | g7636.t1 | cds | g7636.t1.CDS2 | 25025298 | 25025451 |
| chr_2 | g7636 | g7636.t1 | exon | g7636.t1.exon3 | 25025514 | 25025633 |
| chr_2 | g7636 | g7636.t1 | cds | g7636.t1.CDS3 | 25025514 | 25025633 |
| chr_2 | g7636 | g7636.t1 | TSS | g7636.t1 | 25025699 | 25025699 |
Sequences
>g7636.t1 Gene=g7636 Length=1245
ATGTTGAAAAGTGCCACAAAATTGTTGAAATATGCATCAATCAGACCATGTCATGTTCGC
ACGATGACACATTATCCAATCGACGATGTAATGTTTGGATTGAATGAAGAGCAAATTGCT
TTGCGTCAAACAGCTTTCAATTTTGCTCAAAAAGAGTTGGCTCCTTATGCACAAGAGATT
GACAAAAATAATGAATTCAAAGATTTGAGAAATTTTTGGAAGAAACTCGGTTCAATGGGA
TTTCTTGGTATCACTGCAAAACCAGAATATGGGGGCACTGGTGGCACATATCTTGATCAT
GTCATTATAAATGAGGAAATTTCACGTGCATCAGGTGCTATATCGCTCTCATATGGTGCT
CATTCAAATCTTTGTGTAAATCAAATTCATCGAAATGGTAATGAAGAGCAAAAACTCAAA
TATTTGCCAAAATTATGTTCAGGCGACCATATTGGAGCGCTTGCAATGTCAGAATCAGGT
AGTGGATCAGATGTCGTTTCAATGAAATTAAAAGCAGAAAAAGATGGCAATCATTACATT
TTAAATGGTAGCAAATTTTGGATTACAAATGGACCTGATGCTGATATTATTGTTGTTTAT
GCCAAAACAAATCAAAAAGTTTCACCACAGCATGGCATCACTGCTTTCATTGTTGAAAAA
GGATTTGAAGGATTCAGTACGGGACCAAAACTTGATAAACTTGGAATAAGAGGATCAAGC
ACAGGCGAATTAATTTTCCAGGATTGCAAAGTGCCTGTAGAAAATGTTTTGGGACAAACA
GAAAAAGGTGTTTATGTATTGATGAGTGGTTTAGATTATGAAAGAATGGTCTTGGCTTCT
GGGCCAATCGGATTGATGCAAGCAGCTTGTGATGTTTCATTTGCATATGCTCATCAAAGA
AAGCAATTCGGTGTAAGAATTGGTGAATTTCAATTAATTCAAGGAAAAATGGCTGATATG
TATACAACACTTAATGCATGCAGAAGCTATTTATACAATGTTGCCAAAGCATGTGATCTT
GGAAAAACAAATCCAAAAGACTGTGCTGGTGTGATTTTGTATTGCGCAGAAAAAGCTACT
CAACTTTGCTTAGATGCAATACAAATCTTAGGTGGAAATGGATACATAAACGATTTTCCC
ACCGGAAGATTCTTGAGAGATGCAAAATTATATGAGATTGGTGCTGGAACAAGCGAAGTC
CGTCGCATGCTAATTGGACGTCAAATTAACAAAGAGTACAAGTAA
>g7636.t1 Gene=g7636 Length=414
MLKSATKLLKYASIRPCHVRTMTHYPIDDVMFGLNEEQIALRQTAFNFAQKELAPYAQEI
DKNNEFKDLRNFWKKLGSMGFLGITAKPEYGGTGGTYLDHVIINEEISRASGAISLSYGA
HSNLCVNQIHRNGNEEQKLKYLPKLCSGDHIGALAMSESGSGSDVVSMKLKAEKDGNHYI
LNGSKFWITNGPDADIIVVYAKTNQKVSPQHGITAFIVEKGFEGFSTGPKLDKLGIRGSS
TGELIFQDCKVPVENVLGQTEKGVYVLMSGLDYERMVLASGPIGLMQAACDVSFAYAHQR
KQFGVRIGEFQLIQGKMADMYTTLNACRSYLYNVAKACDLGKTNPKDCAGVILYCAEKAT
QLCLDAIQILGGNGYINDFPTGRFLRDAKLYEIGAGTSEVRRMLIGRQINKEYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g7636.t1 | CDD | cd01156 | IVD | 33 | 411 | 0.0 |
| 10 | g7636.t1 | Gene3D | G3DSA:1.10.540.10 | - | 22 | 151 | 7.5E-42 |
| 11 | g7636.t1 | Gene3D | G3DSA:2.40.110.10 | - | 152 | 265 | 4.7E-44 |
| 12 | g7636.t1 | Gene3D | G3DSA:1.20.140.10 | - | 266 | 409 | 4.2E-47 |
| 4 | g7636.t1 | PANTHER | PTHR43884:SF12 | ISOVALERYL-COA DEHYDROGENASE, MITOCHONDRIAL-RELATED | 23 | 414 | 1.9E-200 |
| 5 | g7636.t1 | PANTHER | PTHR43884 | ACYL-COA DEHYDROGENASE | 23 | 414 | 1.9E-200 |
| 3 | g7636.t1 | Pfam | PF02771 | Acyl-CoA dehydrogenase, N-terminal domain | 35 | 149 | 3.8E-35 |
| 1 | g7636.t1 | Pfam | PF02770 | Acyl-CoA dehydrogenase, middle domain | 153 | 249 | 1.8E-25 |
| 2 | g7636.t1 | Pfam | PF00441 | Acyl-CoA dehydrogenase, C-terminal domain | 262 | 409 | 1.1E-40 |
| 9 | g7636.t1 | ProSitePatterns | PS00072 | Acyl-CoA dehydrogenases signature 1. | 155 | 167 | - |
| 8 | g7636.t1 | ProSitePatterns | PS00073 | Acyl-CoA dehydrogenases signature 2. | 368 | 387 | - |
| 6 | g7636.t1 | SUPERFAMILY | SSF56645 | Acyl-CoA dehydrogenase NM domain-like | 32 | 274 | 5.1E-82 |
| 7 | g7636.t1 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 262 | 410 | 8.22E-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 transcript has been annotated with K00253 (isovaleryl-CoA dehydrogenase)
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.
