General information for g14410.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Short-chain specific acyl-CoA dehydrogenase, mitochondrial.
Parent gene
- The parent gene g14410 is located on chr_4: 356223..357445 (- 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 | g14410 | g14410.t3 | TTS | g14410.t3 | 355402 | 355402 |
| chr_4 | g14410 | g14410.t3 | isoform | g14410.t3 | 355467 | 356959 |
| chr_4 | g14410 | g14410.t3 | exon | g14410.t3.exon1 | 355467 | 355528 |
| chr_4 | g14410 | g14410.t3 | cds | g14410.t3.CDS1 | 355467 | 355528 |
| chr_4 | g14410 | g14410.t3 | exon | g14410.t3.exon2 | 355589 | 355679 |
| chr_4 | g14410 | g14410.t3 | cds | g14410.t3.CDS2 | 355589 | 355679 |
| chr_4 | g14410 | g14410.t3 | exon | g14410.t3.exon3 | 355738 | 356471 |
| chr_4 | g14410 | g14410.t3 | cds | g14410.t3.CDS3 | 355738 | 356471 |
| chr_4 | g14410 | g14410.t3 | exon | g14410.t3.exon4 | 356526 | 356959 |
| chr_4 | g14410 | g14410.t3 | cds | g14410.t3.CDS4 | 356526 | 356760 |
| chr_4 | g14410 | g14410.t3 | TSS | g14410.t3 | 357084 | 357084 |
Sequences
>g14410.t3 Gene=g14410 Length=1321
ATGTTTACTATTAGACAATCATTCAAATTTGGTAAATTAAATAAAGAAATTCATAATTGA
ACTTTGGACCTTTTAACTAATTTTTGATATTAAAATTATAAATTCAAATAAATGACCTCA
AAATAATTTATTTCCTTCAGCTTCATCAATCAATGCTCGTTCAATTGTGTCCCTCTCGCA
TCTTCCTGAGACTCATCAAATGTTGTATAAGACATGTCGTGATTTTGCTGATAATGAGTT
AGCACCAATTGCTAAACAAATTGATAAAGAACATCGATATCCATCGGAGCAAGTTAAGAA
AATGGGTGAACTTGGTTTACTTGCGATTGCTATTCCTGAAAAATATGGAGGAACAGGGCT
TGATTATCTTGCTTATGCTATTGGCATGGAAGAAATTTCTCGAGGTTGTGCTACTTGTGG
TGTCATTATGACTGTCAACAACACTTTATATTTGGGACCAGTTAAAAATTTTGGTAACGA
AGCTCAAAAAAAAGAATTTTTAACTCCTTACACTGATGGTGACAAGATTGGATGTTTTGC
ATTATCTGAGCCTGGAAATGGAAGTGATGCTGCAGCTGCTTCTACTACAGCAAAACTTGT
TGGTGATAAATGGGTTTTAAATGGTACCAAAAATTGGATAACAAATGGTCCTGATGCTTC
AGCTGCAATTGTTTTTGCTACCACTGATAAAAAATTAAAACACAAAGGTATTTCAGCTTT
TATTGTAGAGCGTGGTATACCAGGATTTAGTTATGGCAAGAAAGAAGATAAATTGGGTAT
AAGAGGTAGTTCAACATGCTCTTTGATTTTTGATGACTGTGCTATACCTAAAGAAAATAT
TCTCGGTGAAGAAGGATTTGGATTTAAAATTGCAATGAAAACATTAGATGAGGGCCGAAT
TGGAATAGCAGGGCAAGCATTAGGCATTGCTCAAGCATCATTAGAATGTGCAGTTGATTA
TGCAAATAAGAGAATCGCATTTGGAAATCCTATAAGCAAAATGCAAACAATACAAAATAA
AATAGCCGATATGGCAATGAGAATTGAAGCAGCAAGATTACTAACCTGGAGAGCTGCTGT
GTTGAAAGATGAAGGTAAATCAATAACAAAAGAAGCTGCTATGGCAAAATTAGCTGCTAG
TGAAACTGCAACTTTCTGTTCCCATCAAGCAATACAAATTCTTGGTGGTATGGGATACGT
AACAGATATGCCAGCAGAACGTCATTATAGAGATGCAAGAATAACTGAAATTTATGAAGG
AACATCCGAAATTCAAAGACTTGTAATTGCTGGTCAAATACTTAAACAAATGTCACAATA
A
>g14410.t3 Gene=g14410 Length=373
MLYKTCRDFADNELAPIAKQIDKEHRYPSEQVKKMGELGLLAIAIPEKYGGTGLDYLAYA
IGMEEISRGCATCGVIMTVNNTLYLGPVKNFGNEAQKKEFLTPYTDGDKIGCFALSEPGN
GSDAAAASTTAKLVGDKWVLNGTKNWITNGPDASAAIVFATTDKKLKHKGISAFIVERGI
PGFSYGKKEDKLGIRGSSTCSLIFDDCAIPKENILGEEGFGFKIAMKTLDEGRIGIAGQA
LGIAQASLECAVDYANKRIAFGNPISKMQTIQNKIADMAMRIEAARLLTWRAAVLKDEGK
SITKEAAMAKLAASETATFCSHQAIQILGGMGYVTDMPAERHYRDARITEIYEGTSEIQR
LVIAGQILKQMSQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g14410.t3 | CDD | cd01158 | SCAD_SBCAD | 1 | 369 | 0.0 |
| 10 | g14410.t3 | Gene3D | G3DSA:1.10.540.10 | - | 1 | 110 | 1.5E-37 |
| 11 | g14410.t3 | Gene3D | G3DSA:2.40.110.10 | - | 111 | 224 | 2.0E-44 |
| 12 | g14410.t3 | Gene3D | G3DSA:1.20.140.10 | - | 225 | 373 | 8.3E-55 |
| 4 | g14410.t3 | PANTHER | PTHR43884:SF26 | MEDIUM-CHAIN SPECIFIC ACYL-COA DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN-RELATED | 1 | 371 | 3.2E-151 |
| 5 | g14410.t3 | PANTHER | PTHR43884 | ACYL-COA DEHYDROGENASE | 1 | 371 | 3.2E-151 |
| 14 | g14410.t3 | PIRSF | PIRSF016578 | PIGM | 6 | 101 | 1.2E-6 |
| 13 | g14410.t3 | PIRSF | PIRSF016578 | PIGM | 119 | 370 | 3.5E-13 |
| 3 | g14410.t3 | Pfam | PF02771 | Acyl-CoA dehydrogenase, N-terminal domain | 1 | 108 | 2.3E-31 |
| 1 | g14410.t3 | Pfam | PF02770 | Acyl-CoA dehydrogenase, middle domain | 112 | 207 | 1.5E-28 |
| 2 | g14410.t3 | Pfam | PF00441 | Acyl-CoA dehydrogenase, C-terminal domain | 221 | 367 | 1.2E-49 |
| 9 | g14410.t3 | ProSitePatterns | PS00072 | Acyl-CoA dehydrogenases signature 1. | 114 | 126 | - |
| 8 | g14410.t3 | ProSitePatterns | PS00073 | Acyl-CoA dehydrogenases signature 2. | 326 | 345 | - |
| 6 | g14410.t3 | SUPERFAMILY | SSF56645 | Acyl-CoA dehydrogenase NM domain-like | 1 | 232 | 6.54E-84 |
| 7 | g14410.t3 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 217 | 370 | 1.34E-59 |
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 K00248 (butyryl-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.
