Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable peroxisomal acyl-coenzyme A oxidase 1.

Parent gene

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 g8735 g8735.t1 TSS g8735.t1 32697576 32697576
chr_2 g8735 g8735.t1 isoform g8735.t1 32697887 32700233
chr_2 g8735 g8735.t1 exon g8735.t1.exon1 32697887 32698010
chr_2 g8735 g8735.t1 cds g8735.t1.CDS1 32697887 32698010
chr_2 g8735 g8735.t1 exon g8735.t1.exon2 32698074 32698233
chr_2 g8735 g8735.t1 cds g8735.t1.CDS2 32698074 32698233
chr_2 g8735 g8735.t1 exon g8735.t1.exon3 32698290 32698714
chr_2 g8735 g8735.t1 cds g8735.t1.CDS3 32698290 32698714
chr_2 g8735 g8735.t1 exon g8735.t1.exon4 32698882 32699921
chr_2 g8735 g8735.t1 cds g8735.t1.CDS4 32698882 32699921
chr_2 g8735 g8735.t1 exon g8735.t1.exon5 32699973 32700233
chr_2 g8735 g8735.t1 cds g8735.t1.CDS5 32699973 32700233
chr_2 g8735 g8735.t1 TTS g8735.t1 32700717 32700717

Sequences

>g8735.t1 Gene=g8735 Length=2010
ATGACAAAGACAAAAATCAATCCTGACTTGCAAGAAGAGAGAGATAAAATTGCATTTAAT
ATTGAAGAATTTACTAATTGGTATTACAAAGGTGCTGAAAAGGTTGAAGAGAAAAGATTT
TTGGAGGATTTTTTCCTATCAGATCAAGAATTGATGGACAAAGTTCCAATAAGTTATTTG
AGTCATAAGGAAAAATATGAACAAGCAATTCGTAAAGTTGTTCTTGTTGTCAAGAAAATT
CAAGAATTGCAAGCTCAAGGTCGTGCTAGTGTTGATATTTACATGGCGTTGTTGGGAGGA
ACTTTAGGAACAGCACTTTTTAATGAGTCAAATCCAATTACCGTCCATTTTGTAATGTTT
TTACCAGCATTAATGAATCATGGAACAAGTGATCAACAAGCACTTTGGATTTCACGTGCT
TGGAATTGCAACATTATTGGCACTTATGCTCAGACAGAGCTCGGTCATGGAACTTATATT
CGTGGACTTGAAACTACAGCTACTTATGATCCAGCGACTAAAGAATTTGTTTTAAATTCA
CCAACTTTGACTTCCTACAAATGGTGGCCAGGCGGAATGGGACATACTGCAAATTATGCG
ATTGTTATTGCACAACTTTATTCTCTTGGCAAACATCATGGCATTCAACCATTCATTGTA
CAATTGAGAGATGAGGAAACACACAAGCCAATGCCTGGTATTAAAATAGGTGAAATTGGA
AATAAAGTTGGTATGAATACTGTCAATAATGGTTTTCTAGCATTTGATAATGTAAGAATT
CCATTAAATCATATGTTAATGAAAAATGCAAAAGTATTAGAAGATGGTCAATTTATAAAG
CCCAAATCTAGCGTCCTTACATATGGAACAATGATGTTTGTACGAGTGGTGATCTTAAAA
GATATGGCAAGTTACTTATCTAAAGCTGTCACAATCGCTCTTCGGTATTCACTTGTAAGA
CGTCAAAGTCCAATTGAGCCAAACAAACCAGAGCCAAAAATCATTGAACACGTCACACAA
CAATTTAAAATTTTCCCAGCTGTTGCTAAAGTCGTTGTATTTAAGATAACAGCAGAATTT
TTATGGGATATGTATAATGCAGTAACACATGATTTAGATAAAGGTGATTTAGAAAGATTG
CCAGAGCTTCATGCACTTTCATGTTGTTTAAAAGCTGTATGCACTAATGAAGCAGCACAA
GCTGTTGAAACTTGTCGTCTTGCATGTGGTGGACATGGATATTTGAATGCTGCTGGTTTT
CAAGATATCTATGGTATGGTAACAGCAGCACAAACATATGAAGGTGAAAATACAGTGATG
TTTTTGCAAACTGCGCGGTATTTAATCAAAGCATGGAATCAAGCAATGAATAATGAAAAA
TTGACACCAACAGTTGCATATCTTGAGAATTATGTTAATGGCAAAAACTCAAAGCAGCCA
TTTGAAAATTCAACTCGTGGAATTTTGAGAGCTTTTCAATTTGCTGCTGCTAAAAAAATT
GCAGAAGGAAATCAACAATTGGAAAAACGAAAGAAGACACTTTCACCTGAAGAAGCTGCA
AATCAAACTGGATTGGTTTTGACTAAAGCATCAGAACTTCATTGTCAAGCATTTTTATTG
CAAGCTGCGATCGAAGTTCTTGAAGAATCAGCAAAAAATGTTTCACCACAACTTGGAGCT
GTTTTTAAAGATTTGCTTGAACTTTATTCCGTTGATTTGGCATTAAGATATACCGGTTTC
TTATTGGAGTTTTCAAACATGACATCAAAAGATATTCAATCATTACAAGAAACACTTGAA
GCATCACTTAAGAAACTTCGTTATAATGCACTTGGTATTTGTGAAGGTTTTGATCATCCT
GATGGAATTTTAAATTCAGTACTTGGAACACATGATGGAAATGTCTATGAGAATCTCATT
AATGCTGCAATGAAATCACCACTTAATCAGGAAGATGTCAACAAATCATTCCATGAACAT
TTGAAACCATTCATGAAATCAAACTTGTAA

>g8735.t1 Gene=g8735 Length=669
MTKTKINPDLQEERDKIAFNIEEFTNWYYKGAEKVEEKRFLEDFFLSDQELMDKVPISYL
SHKEKYEQAIRKVVLVVKKIQELQAQGRASVDIYMALLGGTLGTALFNESNPITVHFVMF
LPALMNHGTSDQQALWISRAWNCNIIGTYAQTELGHGTYIRGLETTATYDPATKEFVLNS
PTLTSYKWWPGGMGHTANYAIVIAQLYSLGKHHGIQPFIVQLRDEETHKPMPGIKIGEIG
NKVGMNTVNNGFLAFDNVRIPLNHMLMKNAKVLEDGQFIKPKSSVLTYGTMMFVRVVILK
DMASYLSKAVTIALRYSLVRRQSPIEPNKPEPKIIEHVTQQFKIFPAVAKVVVFKITAEF
LWDMYNAVTHDLDKGDLERLPELHALSCCLKAVCTNEAAQAVETCRLACGGHGYLNAAGF
QDIYGMVTAAQTYEGENTVMFLQTARYLIKAWNQAMNNEKLTPTVAYLENYVNGKNSKQP
FENSTRGILRAFQFAAAKKIAEGNQQLEKRKKTLSPEEAANQTGLVLTKASELHCQAFLL
QAAIEVLEESAKNVSPQLGAVFKDLLELYSVDLALRYTGFLLEFSNMTSKDIQSLQETLE
ASLKKLRYNALGICEGFDHPDGILNSVLGTHDGNVYENLINAAMKSPLNQEDVNKSFHEH
LKPFMKSNL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8735.t1 Coils Coil Coil 66 86 -
10 g8735.t1 Gene3D G3DSA:1.10.540.10 - 20 146 7.1E-40
11 g8735.t1 Gene3D G3DSA:2.40.110.10 - 147 285 2.7E-56
12 g8735.t1 Gene3D G3DSA:1.20.140.10 - 286 458 5.9E-59
13 g8735.t1 Gene3D G3DSA:1.20.140.10 - 486 618 7.2E-27
5 g8735.t1 PANTHER PTHR10909:SF250 ACYL-COENZYME A OXIDASE 7 668 8.6E-222
6 g8735.t1 PANTHER PTHR10909 ELECTRON TRANSPORT OXIDOREDUCTASE 7 668 8.6E-222
15 g8735.t1 PIRSF PIRSF000168 Acyl-CoA_oxidase 1 669 1.8E-205
1 g8735.t1 Pfam PF14749 Acyl-coenzyme A oxidase N-terminal 20 146 4.2E-38
2 g8735.t1 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 149 258 1.5E-13
4 g8735.t1 Pfam PF00441 Acyl-CoA dehydrogenase, C-terminal domain 361 447 1.5E-5
3 g8735.t1 Pfam PF01756 Acyl-CoA oxidase 487 666 6.9E-45
7 g8735.t1 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 93 277 4.58E-50
9 g8735.t1 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 286 470 1.24E-53
8 g8735.t1 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 486 667 2.62E-40

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

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.

Raw TPM values