General information for g4322.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Very long-chain specific acyl-CoA dehydrogenase, mitochondrial.
Parent gene
- The parent gene g4322 is located on chr_2: 1193704..1194978 (+ 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 | g4322 | g4322.t3 | TSS | g4322.t3 | 1191585 | 1191585 |
| chr_2 | g4322 | g4322.t3 | isoform | g4322.t3 | 1191634 | 1192896 |
| chr_2 | g4322 | g4322.t3 | exon | g4322.t3.exon1 | 1191634 | 1191701 |
| chr_2 | g4322 | g4322.t3 | exon | g4322.t3.exon2 | 1191829 | 1192088 |
| chr_2 | g4322 | g4322.t3 | exon | g4322.t3.exon3 | 1192234 | 1192367 |
| chr_2 | g4322 | g4322.t3 | cds | g4322.t3.CDS1 | 1192311 | 1192367 |
| chr_2 | g4322 | g4322.t3 | exon | g4322.t3.exon4 | 1192618 | 1192896 |
| chr_2 | g4322 | g4322.t3 | cds | g4322.t3.CDS2 | 1192618 | 1192896 |
| chr_2 | g4322 | g4322.t3 | TTS | g4322.t3 | NA | NA |
Sequences
>g4322.t3 Gene=g4322 Length=741
ATGTTTCGTGCAATTAATAAAGTCGCAAAAAATTCAAAAGCTCTTAAAAATCAGACAGAA
GTTATTAGATGTTTGTCTGCACAGCCACAAACAAAGTCAAAGCAAACACCAAGAGCTGAA
AAAGCTGCAAAACCTAATTTATCATTCGTTCATAATCTCTTCCGTGGACAAGTTGAGAGT
TCACAAGTTTTTCCATATCCAATTGCACTCAATCAAGAACAAATTGAATATGTTGGGGCC
TTTGTTGATCCAGTTTCAAAATTCTTTTCTGAAGTCAATAATGCTGATCGTAATGACATG
AATGCTGTAAGTTGACCTTCAATTGTTTGTCTACAAGTACCACAAGAACTTGGTGGATTA
GAATTGAACAATACACAATATGGTAGACTAGCAGAAATCATTGGTATGAATGATTTAGGT
CTTGGTATTGTTATAGGAGCCCATCAGTCCATCGGTTTTAAGGGAATTCTTCTTTATGGT
ACAAAAGAGCAAAAAGAGAAATATTTACCAAAGGTATCATCAGGTGGTGTTTATGCTGCA
TTTGCATTGACAGAACCATCATCTGGTAGTGATGCAGCATCAATTAAATGTCGTGCAGTA
AAATCAGCTGATGGCAAACATTACATTTTGAATGGTTCAAAAATTTGGATTTCAAATGGT
GGCATTGCTGATATTATGACAGTTTTTGCTCAAACAGAAGTTCTCGATGAAGCAACAGGA
CAAAAGAAAGACAAAGTAACA
>g4322.t3 Gene=g4322 Length=112
MNDLGLGIVIGAHQSIGFKGILLYGTKEQKEKYLPKVSSGGVYAAFALTEPSSGSDAASI
KCRAVKSADGKHYILNGSKIWISNGGIADIMTVFAQTEVLDEATGQKKDKVT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4322.t3 | Gene3D | G3DSA:1.10.540.10 | - | 2 | 43 | 2.3E-46 |
| 8 | g4322.t3 | Gene3D | G3DSA:2.40.110.10 | - | 44 | 112 | 2.3E-46 |
| 3 | g4322.t3 | PANTHER | PTHR43884:SF11 | VERY LONG-CHAIN SPECIFIC ACYL-COA DEHYDROGENASE, MITOCHONDRIAL | 1 | 112 | 4.6E-62 |
| 4 | g4322.t3 | PANTHER | PTHR43884 | ACYL-COA DEHYDROGENASE | 1 | 112 | 4.6E-62 |
| 2 | g4322.t3 | Pfam | PF02771 | Acyl-CoA dehydrogenase, N-terminal domain | 3 | 40 | 2.1E-8 |
| 1 | g4322.t3 | Pfam | PF02770 | Acyl-CoA dehydrogenase, middle domain | 45 | 101 | 3.5E-17 |
| 6 | g4322.t3 | ProSitePatterns | PS00072 | Acyl-CoA dehydrogenases signature 1. | 47 | 59 | - |
| 5 | g4322.t3 | SUPERFAMILY | SSF56645 | Acyl-CoA dehydrogenase NM domain-like | 6 | 102 | 2.49E-36 |
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.
