General information for g16336.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable peroxisomal acyl-coenzyme A oxidase 1.
Parent gene
- The parent gene g16336 is located on chr_4: 9125644..9125971 (+ 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 | g16336 | g16336.t1 | TSS | g16336.t1 | 9123182 | 9123182 |
| chr_4 | g16336 | g16336.t1 | isoform | g16336.t1 | 9123239 | 9125971 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon1 | 9123239 | 9123347 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS1 | 9123239 | 9123347 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon2 | 9123414 | 9123567 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS2 | 9123414 | 9123567 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon3 | 9123671 | 9123726 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS3 | 9123671 | 9123726 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon4 | 9123780 | 9123902 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS4 | 9123780 | 9123902 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon5 | 9124024 | 9124121 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS5 | 9124024 | 9124121 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon6 | 9124191 | 9124338 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS6 | 9124191 | 9124338 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon7 | 9124405 | 9124426 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS7 | 9124405 | 9124426 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon8 | 9124566 | 9125140 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS8 | 9124566 | 9125140 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon9 | 9125199 | 9125650 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS9 | 9125199 | 9125650 |
| chr_4 | g16336 | g16336.t1 | exon | g16336.t1.exon10 | 9125711 | 9125971 |
| chr_4 | g16336 | g16336.t1 | cds | g16336.t1.CDS10 | 9125711 | 9125971 |
| chr_4 | g16336 | g16336.t1 | TTS | g16336.t1 | 9126057 | 9126057 |
Sequences
>g16336.t1 Gene=g16336 Length=1998
ATGAATAAAGATTTAGAAATTGAAAGAAGTAAAGTACCATTTAAAATTGAAGAATTGACA
AATTGGTTTTATGGAGGTGAAAAAAATGTCAAAGAAAAAAGATTTTTGGAAAATATTTTC
TACTCTGACCCTGATTTGAAAAGTGACACAAGTTACATGAGTCATGTTGAAAAATATGAA
GAAGCAATTAGAAAAGTCACTGTTATATTGAAAAAATTAAAACACCTTGTAAATCAAGGT
CAATATAACGAAGAAATTTATCCCAAAATTTTGGGAGCGCAATTCTTAAAACATTTAATA
AAGGAAGGCAACCCAACAAGTGTGCATTTTGACATGTTTATACCAGGCATTAAAAGTATG
GGAACACAAGTACAACAAGATGAATGGTTACCTAAAGCATTAACCTTAAAAATCATTGGC
ACTTATGCTCAAACAGAATTAGGTCATGGTACATATGTTCGAGGATTAGAAACTACAGCA
ACCTTTGATGAAAATACAAAAGAATTTGTTCTTAACACACCAACTTTAACAGCATACAAA
TGGTGGCCGGGCAATTTAGGTCATACAGTCAACCATGCTCTTGTTATGGCCCAATTGTAT
ACAAAAGGCAAATGTTATGGCATTCACGCATTCATTGTACCTTTGAGAGACTTAGAAACC
CATAAACCTTTGCCAGGAGTTCATATAGGAGAAATTGGTACAAAATTCGGATACAACACT
GTCAATAATGGCTTTTTAGGATTGAAAAATGTTCGAATTCCCAGAAAAAATATGTTGATG
AAAAATAGTGAAGTAACTGAAAGTGGGGAATTTGTAATTCATAAAAACCCACTTCTAACT
TATGGGACGATGACAATGATTAGAGTTGGAATAATTCAAGAAGTCCAAGTATTTTTAGCG
AAAGCTGTTACTATTGCAACTCGGTATTCATTGGTAAGACGTCAAAGTCCAATAAACCCA
AATGATGAAATAGAACCGCAAATCATTGAACACACGACACAACAGTACAAACTTTTTGTG
CCATTGGCAAAAGTTTTTTCTTTAAAAATTACATCTGACTACCTATGGAATCAATATGAA
GATACAATGAAAAAAATTGACAAGGGTGATTTGACAACATTACCAGAATTACATGCACTT
TCTTGTTGTTTAAAAGCTATATGCACTAACGATGCTGCTGAAGGTACTGAAATTTGCCGA
TTATCTTGCGGAGGTCATGGCTTTCTTAATTCATCTGCACTTCCTGATTGCTATAAAATG
ATAACACCGGCTCAAACATATGAAGGTGAAAACACTGTTTTATATTTACAAACTGCTCGT
TATTTGATGAAGACTTATGGTGAAATTTTAAAAGGTTCTAAAGTAACATCTACTGTTGCA
TATTTGAAAAAATACGTTGATCTTAATAGCAATCAACGTGAGTCATTTGATAGTTCTTCA
CGAGGAATTCTTCGTGCTTTGCAGTATGCAGCTGCAGGAAAAATTTCTCAAGCTTATAAT
AATTTACAACAAAGAATGAAAAATAATAATTCAAAAGAACAAGCTTTTAATCAAAGTGGT
TTAGATATGATAAAAATTGCTGAAATTCATGGACGTGTTTACATGCTGGAAGTAACACTT
AATGAAATTGAAAAATCAGCTAAAAATTCATCGCCAAACCTTGCTTTTGTATTTAGAGAT
ATTCTTGAACTATTTTCACTTGATTTAGCAACAAAATATATGGGTGAAATGCTGCAGTTT
GTCAACATAACATCACAAGCAATTGAAATTATGCAAGGAAGATTAGAAGCTGTGTTACGT
AGAATGAGACAATATGTGATTGGCATCGTTGATGCATTTGACTTTTCTGATCAAATTTTG
GATTCAACTCTTGGTGCTTACGATGGTAATGTTTACGAAAGATTGATTGAGGCAGCAAAA
AAATCGCCATTAAATCAAGAAGATGTTAATAAATCATTCCATCTATATCTTAAACCGTTC
CTTAAATCAAATTTGTAA
>g16336.t1 Gene=g16336 Length=665
MNKDLEIERSKVPFKIEELTNWFYGGEKNVKEKRFLENIFYSDPDLKSDTSYMSHVEKYE
EAIRKVTVILKKLKHLVNQGQYNEEIYPKILGAQFLKHLIKEGNPTSVHFDMFIPGIKSM
GTQVQQDEWLPKALTLKIIGTYAQTELGHGTYVRGLETTATFDENTKEFVLNTPTLTAYK
WWPGNLGHTVNHALVMAQLYTKGKCYGIHAFIVPLRDLETHKPLPGVHIGEIGTKFGYNT
VNNGFLGLKNVRIPRKNMLMKNSEVTESGEFVIHKNPLLTYGTMTMIRVGIIQEVQVFLA
KAVTIATRYSLVRRQSPINPNDEIEPQIIEHTTQQYKLFVPLAKVFSLKITSDYLWNQYE
DTMKKIDKGDLTTLPELHALSCCLKAICTNDAAEGTEICRLSCGGHGFLNSSALPDCYKM
ITPAQTYEGENTVLYLQTARYLMKTYGEILKGSKVTSTVAYLKKYVDLNSNQRESFDSSS
RGILRALQYAAAGKISQAYNNLQQRMKNNNSKEQAFNQSGLDMIKIAEIHGRVYMLEVTL
NEIEKSAKNSSPNLAFVFRDILELFSLDLATKYMGEMLQFVNITSQAIEIMQGRLEAVLR
RMRQYVIGIVDAFDFSDQILDSTLGAYDGNVYERLIEAAKKSPLNQEDVNKSFHLYLKPF
LKSNL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g16336.t1 | Coils | Coil | Coil | 56 | 76 | - |
| 9 | g16336.t1 | Gene3D | G3DSA:1.10.540.10 | - | 15 | 139 | 9.0E-35 |
| 10 | g16336.t1 | Gene3D | G3DSA:2.40.110.10 | - | 140 | 273 | 2.4E-57 |
| 12 | g16336.t1 | Gene3D | G3DSA:1.20.140.10 | - | 279 | 453 | 6.5E-55 |
| 11 | g16336.t1 | Gene3D | G3DSA:1.20.140.10 | - | 481 | 614 | 2.8E-27 |
| 4 | g16336.t1 | PANTHER | PTHR10909:SF250 | ACYL-COENZYME A OXIDASE | 2 | 664 | 3.5E-223 |
| 5 | g16336.t1 | PANTHER | PTHR10909 | ELECTRON TRANSPORT OXIDOREDUCTASE | 2 | 664 | 3.5E-223 |
| 14 | g16336.t1 | PIRSF | PIRSF000168 | Acyl-CoA_oxidase | 1 | 665 | 3.6E-207 |
| 1 | g16336.t1 | Pfam | PF14749 | Acyl-coenzyme A oxidase N-terminal | 16 | 139 | 5.4E-32 |
| 2 | g16336.t1 | Pfam | PF02770 | Acyl-CoA dehydrogenase, middle domain | 142 | 251 | 4.5E-12 |
| 3 | g16336.t1 | Pfam | PF01756 | Acyl-CoA oxidase | 482 | 662 | 4.8E-48 |
| 6 | g16336.t1 | SUPERFAMILY | SSF56645 | Acyl-CoA dehydrogenase NM domain-like | 98 | 263 | 2.88E-49 |
| 8 | g16336.t1 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 279 | 464 | 1.13E-48 |
| 7 | g16336.t1 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 481 | 663 | 8.48E-42 |
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:0005777 | peroxisome | CC |
| GO:0055114 | NA | NA |
| GO:0006635 | fatty acid beta-oxidation | BP |
| GO:0003997 | acyl-CoA oxidase activity | MF |
| GO:0006631 | fatty acid metabolic process | BP |
| GO:0071949 | FAD binding | MF |
KEGG
Orthology
- This transcript has been annotated with K00232 (acyl-CoA oxidase)
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.
