General information for g4322.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t4 | TSS | g4322.t4 | 1191585 | 1191585 |
| chr_2 | g4322 | g4322.t4 | isoform | g4322.t4 | 1191634 | 1193704 |
| chr_2 | g4322 | g4322.t4 | exon | g4322.t4.exon1 | 1191634 | 1192066 |
| chr_2 | g4322 | g4322.t4 | cds | g4322.t4.CDS1 | 1192058 | 1192066 |
| chr_2 | g4322 | g4322.t4 | exon | g4322.t4.exon2 | 1192130 | 1192178 |
| chr_2 | g4322 | g4322.t4 | cds | g4322.t4.CDS2 | 1192130 | 1192178 |
| chr_2 | g4322 | g4322.t4 | exon | g4322.t4.exon3 | 1192234 | 1192367 |
| chr_2 | g4322 | g4322.t4 | cds | g4322.t4.CDS3 | 1192234 | 1192367 |
| chr_2 | g4322 | g4322.t4 | exon | g4322.t4.exon4 | 1192618 | 1193704 |
| chr_2 | g4322 | g4322.t4 | cds | g4322.t4.CDS4 | 1192618 | 1193703 |
| chr_2 | g4322 | g4322.t4 | TTS | g4322.t4 | 1194175 | 1194175 |
Sequences
>g4322.t4 Gene=g4322 Length=1703
ATGTTTCGTGCAATTAATAAAGTCGCAAAAAATTCAAAAGCTCTTAAAAATCAGACAGAA
GTTATTAGGTAAAATTAGAAAATTGCAATTATTTAAATTTGACCTAATTTCATAATACAT
AAATATTTACAACTCACAGTCAACGACTTGTGGACTTTGAACTTTGTTTCATTCAAAAAA
AAATTTTTTTTTTAGATGTTTGTCTGCACAGCCACAAACAAAGTCAAAGCAAACACCAAG
AGCTGAAAAAGCTGCAAAACCTAATTTATCATTCGTTCATAATCTCTTCCGTGGACAAGT
TGAGAGTTCACAAGTTTTTCCATATCCAATTGCACTCAATCAAGAACAAATTGAATATGT
TGGGGCCTTTGTTGATCCAGTTTCAAAATTCTTTTCTGAAGTCAATAATGCTGATCGTAA
TGACATGAATGCTCAAGTTGATGAAGAAACTTTGAAACATCTCTGGGAACTTGGAGCATT
TGGTCTACAAGTACCACAAGAACTTGGTGGATTAGAATTGAACAATACACAATATGGTAG
ACTAGCAGAAATCATTGGTATGAATGATTTAGGTCTTGGTATTGTTATAGGAGCCCATCA
GTCCATCGGTTTTAAGGGAATTCTTCTTTATGGTACAAAAGAGCAAAAAGAGAAATATTT
ACCAAAGGTATCATCAGGTGGTGTTTATGCTGCATTTGCATTGACAGAACCATCATCTGG
TAGTGATGCAGCATCAATTAAATGTCGTGCAGTAAAATCAGCTGATGGCAAACATTACAT
TTTGAATGGTTCAAAAATTTGGATTTCAAATGGTGGCATTGCTGATATTATGACAGTTTT
TGCTCAAACAGAAGTTCTCGATGAAGCAACAGGACAAAAGAAAGACAAAGTAACAGCTTT
TATTGTTGAACGTGGATTTGGTGGTGTTTCAAATGGTCCACCAGAAAAGAAAATGGGAAT
CAAATGTTCAAATACAGCTGAAGTTTACTTTGAAGATGTAAAAATTCCAGTTGAAAATGT
TTTAGGTAAAGAAGGTGAAGGATTTAAAGTTGCCATGAATATTCTCAATAATGGTCGTTT
TGGTATGGGAATGACACTTGGTGGTACAATGCGTTATTGTATTCAAAAAGCAACTGATCA
TGCAACACAAAGAACTCAATTTGGTAAGAAATTGGAATCTTATGGTGGCATACAAGAAAA
ATTAGCAAGAATGTCAGTTTTGCAATATGTAAATCAATCGATTGCTTACATGATTTCTGG
AAATATGGATTTAGGATCAAATGATTATCATTTAGAAGCTGCTATTTCAAAAGTCTTCGC
ATCTGAGGCAGCTTGGTACGTGTGTGATGAAGCCATTCAAATTTTAGGTGGAATGGGTTT
CATGCGAGATACACAGTTAGAACGCTTCATGCGTGATTTAAGAATCTTTAGAATTTTCGA
GGGAACAAATGACATTTTGCGACTTTTTGTTGCATTGACTGGCATTCAATATGCAGGAAG
TCACTTGAAAGAAGTTCAAAAAGCTTTCCAAAATCCAGCAGCTAATTTGGGATTGATTTT
CAAAGAAGCATCGAAGCGTGCAAGTTCATATATTGGTCTAGGTGGTGTAGACATGACTGG
TCTTGTTGAGCCATCACTCAAAAATTCTGCCAAACTTTGTGGTGAAAGTATCGATATGTT
TGCACGCACTGTTGAGTCATTAT
>g4322.t4 Gene=g4322 Length=426
MNAQVDEETLKHLWELGAFGLQVPQELGGLELNNTQYGRLAEIIGMNDLGLGIVIGAHQS
IGFKGILLYGTKEQKEKYLPKVSSGGVYAAFALTEPSSGSDAASIKCRAVKSADGKHYIL
NGSKIWISNGGIADIMTVFAQTEVLDEATGQKKDKVTAFIVERGFGGVSNGPPEKKMGIK
CSNTAEVYFEDVKIPVENVLGKEGEGFKVAMNILNNGRFGMGMTLGGTMRYCIQKATDHA
TQRTQFGKKLESYGGIQEKLARMSVLQYVNQSIAYMISGNMDLGSNDYHLEAAISKVFAS
EAAWYVCDEAIQILGGMGFMRDTQLERFMRDLRIFRIFEGTNDILRLFVALTGIQYAGSH
LKEVQKAFQNPAANLGLIFKEASKRASSYIGLGGVDMTGLVEPSLKNSAKLCGESIDMFA
RTVESL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g4322.t4 | CDD | cd01161 | VLCAD | 2 | 358 | 0.0 |
| 10 | g4322.t4 | Gene3D | G3DSA:1.10.540.10 | - | 3 | 88 | 5.3E-156 |
| 11 | g4322.t4 | Gene3D | G3DSA:2.40.110.10 | - | 89 | 203 | 5.3E-156 |
| 12 | g4322.t4 | Gene3D | G3DSA:1.20.140.10 | - | 204 | 350 | 5.3E-156 |
| 4 | g4322.t4 | PANTHER | PTHR43884:SF11 | VERY LONG-CHAIN SPECIFIC ACYL-COA DEHYDROGENASE, MITOCHONDRIAL | 3 | 395 | 2.8E-226 |
| 5 | g4322.t4 | PANTHER | PTHR43884 | ACYL-COA DEHYDROGENASE | 3 | 395 | 2.8E-226 |
| 3 | g4322.t4 | Pfam | PF02771 | Acyl-CoA dehydrogenase, N-terminal domain | 3 | 85 | 2.2E-19 |
| 1 | g4322.t4 | Pfam | PF02770 | Acyl-CoA dehydrogenase, middle domain | 90 | 192 | 1.7E-25 |
| 2 | g4322.t4 | Pfam | PF00441 | Acyl-CoA dehydrogenase, C-terminal domain | 204 | 350 | 9.7E-40 |
| 9 | g4322.t4 | ProSitePatterns | PS00072 | Acyl-CoA dehydrogenases signature 1. | 92 | 104 | - |
| 8 | g4322.t4 | ProSitePatterns | PS00073 | Acyl-CoA dehydrogenases signature 2. | 312 | 331 | - |
| 6 | g4322.t4 | SUPERFAMILY | SSF56645 | Acyl-CoA dehydrogenase NM domain-like | 4 | 217 | 4.84E-70 |
| 7 | g4322.t4 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 202 | 350 | 6.12E-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.
