General information for g4243.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Peroxisomal carnitine O-octanoyltransferase.
Parent gene
- The parent gene g4243 is located on chr_2: 602099..602757 (- 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_2 | g4243 | g4243.t1 | TTS | g4243.t1 | 599990 | 599990 |
| chr_2 | g4243 | g4243.t1 | isoform | g4243.t1 | 600395 | 602757 |
| chr_2 | g4243 | g4243.t1 | exon | g4243.t1.exon1 | 600395 | 600820 |
| chr_2 | g4243 | g4243.t1 | cds | g4243.t1.CDS1 | 600395 | 600820 |
| chr_2 | g4243 | g4243.t1 | exon | g4243.t1.exon2 | 601262 | 602440 |
| chr_2 | g4243 | g4243.t1 | cds | g4243.t1.CDS2 | 601262 | 602440 |
| chr_2 | g4243 | g4243.t1 | exon | g4243.t1.exon3 | 602509 | 602757 |
| chr_2 | g4243 | g4243.t1 | cds | g4243.t1.CDS3 | 602509 | 602757 |
| chr_2 | g4243 | g4243.t1 | TSS | g4243.t1 | 602914 | 602914 |
Sequences
>g4243.t1 Gene=g4243 Length=1854
ATGAGTAGAGAAACATTTTTTTTTCTTCCTGAAGATGCACCATCTACATTTTCTCATGAT
GAAAATTTAGAAAACTTGCCTCTTCCAAAATTAGAAGATACTTTAGAACGCTATTACAGA
AACTTGTTACCATTCGGCAATGAAGTTGAATTAGAGAATTCCCGTAAAATAATTGAAGAA
TTCAAAAATGGAATTGGTAAAAAACTACAAAAAATGCTTGAAGAGAAAGCATCAAAAGAA
AGGAACTGGGTTGAAAAATTTTGGGAAGATTATGCTTATCATGAGTTGAGGTTTCCATTA
TCTCCATTTTGTATTATGGCTCAACCTTTGATCGTTGCATCTGTTGGACTTGAGGAAAGT
AGAACTAATCGTTTGAAAGCACTTGCAACTACTGGCTATCATTCTGGAAAATTTTGGCAA
CTCATTTATACTGAACGATTACGCCCTCCTACAAACCCAGATGGAAGTGTAACGTTTTCT
TCTGATTTATTTAAAAGACTCTTCAATACTTGCCGCATTCCAGGTGAAGCAAAAGACGTC
ATTCAGTCATATTTTAAAACTAAATCTGAAGGTGGAGATTGTCCAAAGACAATTTTAATA
ATTGGAAAAGGACGAGTATTTTATTTTGATTTTATGATCGATGATAAGGTGCTTTCGCCA
CAAGAGTTTTTATATACATTTTCAATCATACGTGATAAGATAGAAAACGAAGAAATTGAA
TCTGGCATTCCAGTTTTAACTTGCGATGAAAGAACAAGTTGGGCAAAGAATCGCAAATAT
TTAATTGAACTATCAAAGAATAATGCAGAATTGTTGAACATTATTGAGTCAGCTGCAATG
ACCTTATGTTTAGATGACAATGAACCAATAGACTATTCTGAAACATCGATTTATACATTA
AGTGGAGACTATTCATCAAGGTGGCTTGATAAATCGAGTGCTATGGTTTCTTTTAAAAAT
GGAAAATTTGGCTGTATCGGCGAACATTCGGCATACGATGGAACAGTATCTATTGCATTT
TCAACATTCATTTTATTGAGTTTAATGGAAGAGCCAGAACCTGATTGGAGTGTGGAGCCA
AAGATCAAAATTATTCCTAAAGAGATTAAATTTCAAATTGACGATCATTTGCGTAATGAA
ATTGTAAGAGTTGAAAAATTTTTAGTAGGAATGAGTAGAGCAGTTACTGCAAAGTGCACA
CAATTCGATGACTATGGTAAAGCATTTATGAAAGAACAAAAAATACATCCTGATTGTTAT
GTTCAAACAGCACTTCAACTTGCATATTATAACTTACATGGAAAACTTGCTCCAACATAT
GAAACAGCTACAATGAGAGTGTATTATCATGGAAGAACTGAAACAGTGCGATCTTGCACA
ATTGAAGTTAAAGAGTGGATTGATAAAATGCATGATGAAAACGCTTCTACGTCAGAGAAA
GCAAAATATTTTAAGGAAGCTGCCAATTCGCAATATTTTTTGATGAACGAAGCAAGAAAG
GGAAGAGGTTTTGATAGACATCTTTTTGCCCTTTGGTGTATTGCACATGAAAATAATATT
CCAATTCCTGCTCTCTATAATGATCAGCTTTACACAAGATCAGGAGGCGGTGGTAATTTT
GTGCTTTCAACATCGACATTGGGATATACAATTAATGTAGGCTTTGTTGCCGCTATGGTT
CTCGATGGATATGGCATCTTTTATTCAATGCTCGATGATTGTGTATGGATTATTACAACA
GCTTATCGTGATAGTGAAGTTACTTCCAATTGCAAATTTTATGCATCATTTGTTAGTGCT
ATGAAAGAGATCAAAGACATTTTAGAAAATTCTACTTCTAATTCCAAGTTATAA
>g4243.t1 Gene=g4243 Length=617
MSRETFFFLPEDAPSTFSHDENLENLPLPKLEDTLERYYRNLLPFGNEVELENSRKIIEE
FKNGIGKKLQKMLEEKASKERNWVEKFWEDYAYHELRFPLSPFCIMAQPLIVASVGLEES
RTNRLKALATTGYHSGKFWQLIYTERLRPPTNPDGSVTFSSDLFKRLFNTCRIPGEAKDV
IQSYFKTKSEGGDCPKTILIIGKGRVFYFDFMIDDKVLSPQEFLYTFSIIRDKIENEEIE
SGIPVLTCDERTSWAKNRKYLIELSKNNAELLNIIESAAMTLCLDDNEPIDYSETSIYTL
SGDYSSRWLDKSSAMVSFKNGKFGCIGEHSAYDGTVSIAFSTFILLSLMEEPEPDWSVEP
KIKIIPKEIKFQIDDHLRNEIVRVEKFLVGMSRAVTAKCTQFDDYGKAFMKEQKIHPDCY
VQTALQLAYYNLHGKLAPTYETATMRVYYHGRTETVRSCTIEVKEWIDKMHDENASTSEK
AKYFKEAANSQYFLMNEARKGRGFDRHLFALWCIAHENNIPIPALYNDQLYTRSGGGGNF
VLSTSTLGYTINVGFVAAMVLDGYGIFYSMLDDCVWIITTAYRDSEVTSNCKFYASFVSA
MKEIKDILENSTSNSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4243.t1 | Gene3D | G3DSA:3.30.559.40 | - | 23 | 605 | 0 |
| 6 | g4243.t1 | Gene3D | G3DSA:3.30.559.70 | - | 82 | 398 | 0 |
| 2 | g4243.t1 | PANTHER | PTHR22589:SF67 | PEROXISOMAL CARNITINE O-OCTANOYLTRANSFERASE | 15 | 615 | 0 |
| 3 | g4243.t1 | PANTHER | PTHR22589 | CARNITINE O-ACYLTRANSFERASE | 15 | 615 | 0 |
| 1 | g4243.t1 | Pfam | PF00755 | Choline/Carnitine o-acyltransferase | 23 | 605 | 0 |
| 5 | g4243.t1 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 15 | 386 | 0 |
| 4 | g4243.t1 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 397 | 610 | 0 |
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:0016746 | acyltransferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K05940 (carnitine O-octanoyltransferase)
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. There were no conditions that were differentially expressed