General information for g15685.t1
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.t1 | TSS | g15685.t1 | 6391068 | 6391068 |
| chr_4 | g15685 | g15685.t1 | isoform | g15685.t1 | 6391223 | 6392239 |
| chr_4 | g15685 | g15685.t1 | exon | g15685.t1.exon1 | 6391223 | 6391377 |
| chr_4 | g15685 | g15685.t1 | cds | g15685.t1.CDS1 | 6391223 | 6391377 |
| chr_4 | g15685 | g15685.t1 | exon | g15685.t1.exon2 | 6391516 | 6392239 |
| chr_4 | g15685 | g15685.t1 | cds | g15685.t1.CDS2 | 6391516 | 6392239 |
| chr_4 | g15685 | g15685.t1 | TTS | g15685.t1 | 6392356 | 6392356 |
Sequences
>g15685.t1 Gene=g15685 Length=879
ATGTTTAAATTAACAAAACTTGTAATTAGTAGACAATCAAGTAGAATGTTTTCATCATTT
GAGACTCTAAAAGTGACAACACCAAAAGCATTTGTTGCTCATGTTGAGCTTAATCGTCCA
GATAGACTTAATGCACTTAATTATACACTTTGGGACGAACTTACAAAATGTTTCAAAGAA
CTCGGATCTTCACCAGACGTTCGTTCGATTGTCCTTACTGGTGCTGGTAAGCATTTTACG
GCAGGAATTGATTTAATGGATATGCTTCAACTTGGACAAAAATTATCTGAAGTCACCGAT
GTTTCAAGAAAGGCAAAACTCTTTGATGAACTCATCGAACATCATCAAGATTCAATTTCA
TCATTGGAAAAATGTCCAAAGCCAGTTATTGCTGCAACTCATTCAGCTGTCGTTGGTGCA
GGAGTTGACATGATTACAGCAGCTGACATTAGATATTGTACTGCAGATTGCTGGTTCAGT
GTTAAAGAAGTTGATATTGGAATGGCTGCTGATGTCGGAACTTTACAGAGACTTCCAAAA
GTCATCGGTAGTCAAAGTCTTGTTCGTGAACTTTGTTTTACAGGCAGAAAATTCAAATCT
GATGAAGCTCTAAAATGGGGACTTGTAAATCGAGTTTTTGATACAAAAGAAGAAATGGTT
GAAGAAGCATTAAAATTGGCTGAAAATATCGCTAGCAAATCACCAGTTGCAGTACAAGCT
ACAAAGAAAAATTTGGTTTATTCTTTGGAACATACAAATCAAGAAGGACTTGATCACATC
AGAGAAATTAATAAAATAAACTTGCAAAGTGAAGATTTCTTTAATGCTGTTATTGCTGGA
CAATCGAAAGGTGAAATGCCAAAATTTTCTAAACTTTAA
>g15685.t1 Gene=g15685 Length=292
MFKLTKLVISRQSSRMFSSFETLKVTTPKAFVAHVELNRPDRLNALNYTLWDELTKCFKE
LGSSPDVRSIVLTGAGKHFTAGIDLMDMLQLGQKLSEVTDVSRKAKLFDELIEHHQDSIS
SLEKCPKPVIAATHSAVVGAGVDMITAADIRYCTADCWFSVKEVDIGMAADVGTLQRLPK
VIGSQSLVRELCFTGRKFKSDEALKWGLVNRVFDTKEEMVEEALKLAENIASKSPVAVQA
TKKNLVYSLEHTNQEGLDHIREINKINLQSEDFFNAVIAGQSKGEMPKFSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g15685.t1 | CDD | cd06558 | crotonase-like | 32 | 230 | 5.13475E-69 |
| 6 | g15685.t1 | Gene3D | G3DSA:3.90.226.10 | - | 16 | 231 | 5.0E-67 |
| 5 | g15685.t1 | Gene3D | G3DSA:1.10.12.10 | - | 232 | 292 | 5.8E-18 |
| 2 | g15685.t1 | PANTHER | PTHR43149 | ENOYL-COA HYDRATASE | 18 | 292 | 9.9E-104 |
| 1 | g15685.t1 | Pfam | PF00378 | Enoyl-CoA hydratase/isomerase | 30 | 262 | 2.8E-47 |
| 3 | g15685.t1 | SUPERFAMILY | SSF52096 | ClpP/crotonase | 29 | 283 | 1.89E-70 |
| 4 | g15685.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 18 | - |
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.
