General information for g15685.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Delta-3,5-Delta-2,4-dienoyl-CoA isomerase, mitochondrial.
Parent gene
- The parent gene g15685 is located on chr_4: 6391533..6395515 (+ 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_4 | g15685 | g15685.t3 | TSS | g15685.t3 | 6391068 | 6391068 |
| chr_4 | g15685 | g15685.t3 | isoform | g15685.t3 | 6391117 | 6392239 |
| chr_4 | g15685 | g15685.t3 | exon | g15685.t3.exon1 | 6391117 | 6391131 |
| chr_4 | g15685 | g15685.t3 | exon | g15685.t3.exon2 | 6391255 | 6391377 |
| chr_4 | g15685 | g15685.t3 | cds | g15685.t3.CDS1 | 6391268 | 6391377 |
| chr_4 | g15685 | g15685.t3 | exon | g15685.t3.exon3 | 6391516 | 6392239 |
| chr_4 | g15685 | g15685.t3 | cds | g15685.t3.CDS2 | 6391516 | 6392239 |
| chr_4 | g15685 | g15685.t3 | TTS | g15685.t3 | 6392356 | 6392356 |
Sequences
>g15685.t3 Gene=g15685 Length=862
CCTAGGCATTTTAAGACAATCAAGTAGAATGTTTTCATCATTTGAGACTCTAAAAGTGAC
AACACCAAAAGCATTTGTTGCTCATGTTGAGCTTAATCGTCCAGATAGACTTAATGCACT
TAATTATACACTTTGGGACGAACTTACAAAATGTTTCAAAGAACTCGGATCTTCACCAGA
CGTTCGTTCGATTGTCCTTACTGGTGCTGGTAAGCATTTTACGGCAGGAATTGATTTAAT
GGATATGCTTCAACTTGGACAAAAATTATCTGAAGTCACCGATGTTTCAAGAAAGGCAAA
ACTCTTTGATGAACTCATCGAACATCATCAAGATTCAATTTCATCATTGGAAAAATGTCC
AAAGCCAGTTATTGCTGCAACTCATTCAGCTGTCGTTGGTGCAGGAGTTGACATGATTAC
AGCAGCTGACATTAGATATTGTACTGCAGATTGCTGGTTCAGTGTTAAAGAAGTTGATAT
TGGAATGGCTGCTGATGTCGGAACTTTACAGAGACTTCCAAAAGTCATCGGTAGTCAAAG
TCTTGTTCGTGAACTTTGTTTTACAGGCAGAAAATTCAAATCTGATGAAGCTCTAAAATG
GGGACTTGTAAATCGAGTTTTTGATACAAAAGAAGAAATGGTTGAAGAAGCATTAAAATT
GGCTGAAAATATCGCTAGCAAATCACCAGTTGCAGTACAAGCTACAAAGAAAAATTTGGT
TTATTCTTTGGAACATACAAATCAAGAAGGACTTGATCACATCAGAGAAATTAATAAAAT
AAACTTGCAAAGTGAAGATTTCTTTAATGCTGTTATTGCTGGACAATCGAAAGGTGAAAT
GCCAAAATTTTCTAAACTTTAA
>g15685.t3 Gene=g15685 Length=277
MFSSFETLKVTTPKAFVAHVELNRPDRLNALNYTLWDELTKCFKELGSSPDVRSIVLTGA
GKHFTAGIDLMDMLQLGQKLSEVTDVSRKAKLFDELIEHHQDSISSLEKCPKPVIAATHS
AVVGAGVDMITAADIRYCTADCWFSVKEVDIGMAADVGTLQRLPKVIGSQSLVRELCFTG
RKFKSDEALKWGLVNRVFDTKEEMVEEALKLAENIASKSPVAVQATKKNLVYSLEHTNQE
GLDHIREINKINLQSEDFFNAVIAGQSKGEMPKFSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g15685.t3 | CDD | cd06558 | crotonase-like | 17 | 215 | 0 |
| 5 | g15685.t3 | Gene3D | G3DSA:3.90.226.10 | - | 2 | 216 | 0 |
| 4 | g15685.t3 | Gene3D | G3DSA:1.10.12.10 | - | 217 | 277 | 0 |
| 2 | g15685.t3 | PANTHER | PTHR43149 | ENOYL-COA HYDRATASE | 3 | 277 | 0 |
| 1 | g15685.t3 | Pfam | PF00378 | Enoyl-CoA hydratase/isomerase | 15 | 247 | 0 |
| 3 | g15685.t3 | SUPERFAMILY | SSF52096 | ClpP/crotonase | 14 | 268 | 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:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K12663 (Delta3,5-Delta2,4-dienoyl-CoA isomerase)
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.
