General information for g4243.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t6 | TTS | g4243.t6 | 599990 | 599990 |
| chr_2 | g4243 | g4243.t6 | isoform | g4243.t6 | 600395 | 601643 |
| chr_2 | g4243 | g4243.t6 | exon | g4243.t6.exon1 | 600395 | 600820 |
| chr_2 | g4243 | g4243.t6 | cds | g4243.t6.CDS1 | 600395 | 600820 |
| chr_2 | g4243 | g4243.t6 | exon | g4243.t6.exon2 | 601262 | 601643 |
| chr_2 | g4243 | g4243.t6 | cds | g4243.t6.CDS2 | 601262 | 601519 |
| chr_2 | g4243 | g4243.t6 | TSS | g4243.t6 | 602344 | 602344 |
Sequences
>g4243.t6 Gene=g4243 Length=808
GGAAGAGCCAGAACCTGATTGGAGTGTGGAGCCAAAGATCAAAATTATTCCTAAAGAGAT
TAAATTTCAAATTGACGATCATTTGCGTAATGAAATTGTAAGAGTTGAAAAATTTTTAGT
AGGAATGAGTAGAGCAGTTACTGCAAAGTGCACACAATTCGATGACTATGGTAAAGCATT
TATGAAAGAACAAAAAATACATCCTGATTGTTATGTTCAAACAGCACTTCAACTTGCATA
TTATAACTTACATGGAAAACTTGCTCCAACATATGAAACAGCTACAATGAGAGTGTATTA
TCATGGAAGAACTGAAACAGTGCGATCTTGCACAATTGAAGTTAAAGAGTGGATTGATAA
AATGCATGATGAAAACGCTTCTACGTCAGAGAAAGCAAAATATTTTAAGGAAGCTGCCAA
TTCGCAATATTTTTTGATGAACGAAGCAAGAAAGGGAAGAGGTTTTGATAGACATCTTTT
TGCCCTTTGGTGTATTGCACATGAAAATAATATTCCAATTCCTGCTCTCTATAATGATCA
GCTTTACACAAGATCAGGAGGCGGTGGTAATTTTGTGCTTTCAACATCGACATTGGGATA
TACAATTAATGTAGGCTTTGTTGCCGCTATGGTTCTCGATGGATATGGCATCTTTTATTC
AATGCTCGATGATTGTGTATGGATTATTACAACAGCTTATCGTGATAGTGAAGTTACTTC
CAATTGCAAATTTTATGCATCATTTGTTAGTGCTATGAAAGAGATCAAAGACATTTTAGA
AAATTCTACTTCTAATTCCAAGTTATAA
>g4243.t6 Gene=g4243 Length=227
MSRAVTAKCTQFDDYGKAFMKEQKIHPDCYVQTALQLAYYNLHGKLAPTYETATMRVYYH
GRTETVRSCTIEVKEWIDKMHDENASTSEKAKYFKEAANSQYFLMNEARKGRGFDRHLFA
LWCIAHENNIPIPALYNDQLYTRSGGGGNFVLSTSTLGYTINVGFVAAMVLDGYGIFYSM
LDDCVWIITTAYRDSEVTSNCKFYASFVSAMKEIKDILENSTSNSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4243.t6 | Gene3D | G3DSA:3.30.559.40 | - | 1 | 226 | 1.1E-72 |
| 2 | g4243.t6 | PANTHER | PTHR22589:SF67 | PEROXISOMAL CARNITINE O-OCTANOYLTRANSFERASE | 6 | 225 | 3.7E-75 |
| 3 | g4243.t6 | PANTHER | PTHR22589 | CARNITINE O-ACYLTRANSFERASE | 6 | 225 | 3.7E-75 |
| 1 | g4243.t6 | Pfam | PF00755 | Choline/Carnitine o-acyltransferase | 4 | 215 | 2.6E-66 |
| 5 | g4243.t6 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 7 | 220 | 6.67E-73 |
| 4 | g4243.t6 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 149 | 171 | - |
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 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.
