General information for g15017.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Peroxisomal acyl-coenzyme A oxidase 3.
Parent gene
- The parent gene g15017 is located on chr_4: 3536016..3537099 (- 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 | g15017 | g15017.t6 | TTS | g15017.t6 | 3534309 | 3534309 |
| chr_4 | g15017 | g15017.t6 | isoform | g15017.t6 | 3535019 | 3537099 |
| chr_4 | g15017 | g15017.t6 | exon | g15017.t6.exon1 | 3535019 | 3535768 |
| chr_4 | g15017 | g15017.t6 | cds | g15017.t6.CDS1 | 3535020 | 3535768 |
| chr_4 | g15017 | g15017.t6 | exon | g15017.t6.exon2 | 3535820 | 3536628 |
| chr_4 | g15017 | g15017.t6 | cds | g15017.t6.CDS2 | 3535820 | 3536628 |
| chr_4 | g15017 | g15017.t6 | exon | g15017.t6.exon3 | 3536864 | 3536919 |
| chr_4 | g15017 | g15017.t6 | cds | g15017.t6.CDS3 | 3536864 | 3536889 |
| chr_4 | g15017 | g15017.t6 | exon | g15017.t6.exon4 | 3537023 | 3537099 |
| chr_4 | g15017 | g15017.t6 | TSS | g15017.t6 | 3537099 | 3537099 |
Sequences
>g15017.t6 Gene=g15017 Length=1692
AGTCTTTGTGAAGTCTTAAACTCATTCACATCGGTGCGTTTAAAACTAAAGAGAAAAATT
CAAAGTTGCTGTTTTAGTCGATTTGTAAACCAAAAACTATAAGAGCAATGAGTCAATCAA
CTCAGAATTTTAGTTCACAACAACCAAAAGGAATGAAAGATCTTAATGATCCTAGATTTG
CTCGTAAAGACATTTTTCCAGACCTACATCTTCTTGATGGACCTTTACAGCAATATCGCT
ACAAAGCAACATTCGATTGGCGTCAAATGAGACTTATCACTGACCCTTTACCAGTATGGG
AAGTTAAATACAAAGTATGGGATTTTATGCAGAAAAATCCTCTTTTTGGTCGATCACATG
AAACTTTACCACTTGATGAACAACGAAAAATTGCAACAAAGCGAGCGTTTTCAATTTTTA
ATGAGAAAATTTTCAGCATTGAGCAATATTTAGAAACTCCAGAACTTGGTCAAAAATTTA
GTACTGCAATTACTGCCTTTGATCCAAGCATAAGTGTTAAAATTGGAATTGGCTTTGGAA
TGTTCCCAAATGTCATCATGTCACTTGGTAATGAAAGAGTTCAAGATTTAGTTATGGAAA
ATCAAAGGATGGAAAATATTGGTTGTTTTGCATTAACTGAAATTTCTCATGGCAGCGATT
CACAAAGAATGAAAACAACAGCAACTTATGACCCATCAACAAAATCATTTGTGTTAAACA
CACCAAATTTTGAGGCTGCAAAATGTTGGGTTGGTAACTTAGGAAAGACTGCAACGCATG
CCATTGTTTATGCACAACTTTATACACCTGATGGAAAATGTCATGGACTTAATGCTTTTG
TTGTTCCATTAAGAGATAAAAAGACACATATGGCATTTCCTGGTGTAACTATTGGTGATT
TAGGAGAGAAAATTTCTTTAAATGGTGTCGATAATGGATTTGTTCTTTTTAGCAATTATA
AAATTCCCAAAGAATATCTTCTTTCAAAAACTGGTGATGTTGATGATGAAGGAAATTTCA
TAACACAATATAAAGACCCAAAAAAGCGCATGGGTCTATCATTTGCAGCTTTATCTGGTG
GTCGAGTTGGAATATGTGAACTTGCAACAACTTATGGAATAACAGCAATAATAATTGCAA
TTCGTTATTCAGCAAGTCGTAAACAATTTGGACCTGATAATAGCAATATTGAGTATCCAG
TGCTTGAATATCAAACACAACAATATCGACTTATTCCACATTTAGCAAGTATCTATGCAG
TGAGATTTTTCTCAAATTGGATTGGACGTGAATATGGAAAAATGACACTTAAAGGTTTCA
CTGGTGAAAAAGTTAGTGTTGAAAGTGGCATGGAAATGCATGCAATTTCATCAGCTGGTA
AGCCAGTTTCTGGCTGGATTGTTAGAGATTGCATACAAGACTGTAGAGAAGCATGTGGTG
GACATGGATACTTGAAATGTGCACGATTGGGTGATTTGAGAAATGACAACGATCCAAATT
TGACTTATGAAGGTGAAAATAACGTTTTAATTCAACAAGCTTCAAATTTCTTAATTGCTA
TACGAGCAAAAGGATGGAATTCTTTTGAAAATGCATCACCATTGGGAACTGTTGCATTTT
TAAAAGATGGTGAAGCAATTTTAAGATCAAAATGGAATTGGTCTAAAATTGAATGTGTGA
TGAAACCTGAAA
>g15017.t6 Gene=g15017 Length=528
MSQSTQNFSSQQPKGMKDLNDPRFARKDIFPDLHLLDGPLQQYRYKATFDWRQMRLITDP
LPVWEVKYKVWDFMQKNPLFGRSHETLPLDEQRKIATKRAFSIFNEKIFSIEQYLETPEL
GQKFSTAITAFDPSISVKIGIGFGMFPNVIMSLGNERVQDLVMENQRMENIGCFALTEIS
HGSDSQRMKTTATYDPSTKSFVLNTPNFEAAKCWVGNLGKTATHAIVYAQLYTPDGKCHG
LNAFVVPLRDKKTHMAFPGVTIGDLGEKISLNGVDNGFVLFSNYKIPKEYLLSKTGDVDD
EGNFITQYKDPKKRMGLSFAALSGGRVGICELATTYGITAIIIAIRYSASRKQFGPDNSN
IEYPVLEYQTQQYRLIPHLASIYAVRFFSNWIGREYGKMTLKGFTGEKVSVESGMEMHAI
SSAGKPVSGWIVRDCIQDCREACGGHGYLKCARLGDLRNDNDPNLTYEGENNVLIQQASN
FLIAIRAKGWNSFENASPLGTVAFLKDGEAILRSKWNWSKIECVMKPE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g15017.t6 | Gene3D | G3DSA:2.40.110.10 | - | 172 | 310 | 1.1E-51 |
| 9 | g15017.t6 | Gene3D | G3DSA:1.20.140.10 | - | 317 | 489 | 3.0E-53 |
| 6 | g15017.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 16 | - |
| 7 | g15017.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 2 | g15017.t6 | PANTHER | PTHR10909:SF315 | PEROXISOMAL ACYL-COENZYME A OXIDASE 3 | 35 | 527 | 2.6E-201 |
| 3 | g15017.t6 | PANTHER | PTHR10909 | ELECTRON TRANSPORT OXIDOREDUCTASE | 35 | 527 | 2.6E-201 |
| 1 | g15017.t6 | Pfam | PF02770 | Acyl-CoA dehydrogenase, middle domain | 173 | 283 | 1.3E-17 |
| 4 | g15017.t6 | SUPERFAMILY | SSF56645 | Acyl-CoA dehydrogenase NM domain-like | 41 | 298 | 7.05E-45 |
| 5 | g15017.t6 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 315 | 493 | 2.9E-47 |
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: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.
