General information for g15573.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable medium-chain specific acyl-CoA dehydrogenase, mitochondrial.
Parent gene
- The parent gene g15573 is located on chr_4: 5901647..5902445 (- 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 | g15573 | g15573.t1 | isoform | g15573.t1 | 5901647 | 5902445 |
| chr_4 | g15573 | g15573.t1 | exon | g15573.t1.exon1 | 5901647 | 5902005 |
| chr_4 | g15573 | g15573.t1 | cds | g15573.t1.CDS1 | 5901647 | 5902005 |
| chr_4 | g15573 | g15573.t1 | exon | g15573.t1.exon2 | 5902071 | 5902371 |
| chr_4 | g15573 | g15573.t1 | cds | g15573.t1.CDS2 | 5902071 | 5902371 |
| chr_4 | g15573 | g15573.t1 | exon | g15573.t1.exon3 | 5902431 | 5902445 |
| chr_4 | g15573 | g15573.t1 | cds | g15573.t1.CDS3 | 5902431 | 5902445 |
| chr_4 | g15573 | g15573.t1 | TSS | g15573.t1 | NA | NA |
| chr_4 | g15573 | g15573.t1 | TTS | g15573.t1 | NA | NA |
Sequences
>g15573.t1 Gene=g15573 Length=675
ATGGCATTTCCTAAGTTTTCTTCAATAACTTGCCAAATTGGCATTCGAACATTTTCATTA
AGTTCACGAGTTTTCAACACCGCTGGTCCATCATTAGCTCTTTCTGATGAACAGTGTGAA
ATTCAAGCTACAGCAAGAAAATTTGCACGTGAAGAAATAATTCCAGTTGCAGCACATCAT
GATAGAACTGGCGAATACCCATGGGAAATTTTGAAAAAAGCTAGAGAATTAGGCCTAATA
AACTATTTTATTCCAGAACATTGTGGAGGTCATGGCTTATCAGTTTTTACAACAAGTTTA
TTAAATGAAGAGCTTTCCTACGGTTGCAGTGGAATATGTTTAGCAATTGAAGGCTCCAAT
TTAGGACAAATTCCACTAGTTTTAAGGGGAAATCAAGAACAACAAAAAAAGTATTTAGGC
AGATTAATTGAAGAACCACTACTTGCTGCATGTGCTGTTACAGAACCATCAGCTGGTTCT
GATGTCAGCGGCATCAAAACAAAAGCAGTAAAGAAAGGTGATGAATATATTTTAAATGGA
CAGAAAATGTGGATCACAAATGGTGGTTTAGCAAACTGGTATTTCGTACTTGCAAGGACT
GCTGAAGATCCCAAAACACCACCATCGAAAGCTTTTACTGGTTTTATTGTTGAGGTAAAA
ATTTATTTATCATGA
>g15573.t1 Gene=g15573 Length=224
MAFPKFSSITCQIGIRTFSLSSRVFNTAGPSLALSDEQCEIQATARKFAREEIIPVAAHH
DRTGEYPWEILKKARELGLINYFIPEHCGGHGLSVFTTSLLNEELSYGCSGICLAIEGSN
LGQIPLVLRGNQEQQKKYLGRLIEEPLLAACAVTEPSAGSDVSGIKTKAVKKGDEYILNG
QKMWITNGGLANWYFVLARTAEDPKTPPSKAFTGFIVEVKIYLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g15573.t1 | Gene3D | G3DSA:1.10.540.10 | - | 23 | 148 | 6.0E-38 |
| 8 | g15573.t1 | Gene3D | G3DSA:2.40.110.10 | - | 149 | 221 | 7.4E-25 |
| 3 | g15573.t1 | PANTHER | PTHR48083 | MEDIUM-CHAIN SPECIFIC ACYL-COA DEHYDROGENASE, MITOCHONDRIAL-RELATED | 33 | 218 | 3.1E-72 |
| 4 | g15573.t1 | PANTHER | PTHR48083:SF2 | MEDIUM-CHAIN SPECIFIC ACYL-COA DEHYDROGENASE, MITOCHONDRIAL | 33 | 218 | 3.1E-72 |
| 2 | g15573.t1 | Pfam | PF02771 | Acyl-CoA dehydrogenase, N-terminal domain | 35 | 144 | 6.2E-26 |
| 1 | g15573.t1 | Pfam | PF02770 | Acyl-CoA dehydrogenase, middle domain | 150 | 218 | 1.7E-18 |
| 6 | g15573.t1 | ProSitePatterns | PS00072 | Acyl-CoA dehydrogenases signature 1. | 152 | 164 | - |
| 5 | g15573.t1 | SUPERFAMILY | SSF56645 | Acyl-CoA dehydrogenase NM domain-like | 31 | 220 | 1.22E-57 |
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. There were no conditions that were differentially expressed