General information for g14113.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Carnitine O-palmitoyltransferase 1, muscle isoform.
Parent gene
- The parent gene g14113 is located on chr_1: 34781785..34782190 (- 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_1 | g14113 | g14113.t3 | isoform | g14113.t3 | 34780490 | 34781553 |
| chr_1 | g14113 | g14113.t3 | exon | g14113.t3.exon1 | 34780490 | 34780575 |
| chr_1 | g14113 | g14113.t3 | cds | g14113.t3.CDS1 | 34780492 | 34780575 |
| chr_1 | g14113 | g14113.t3 | exon | g14113.t3.exon2 | 34780629 | 34781553 |
| chr_1 | g14113 | g14113.t3 | cds | g14113.t3.CDS2 | 34780629 | 34781471 |
| chr_1 | g14113 | g14113.t3 | TSS | g14113.t3 | NA | NA |
| chr_1 | g14113 | g14113.t3 | TTS | g14113.t3 | NA | NA |
Sequences
>g14113.t3 Gene=g14113 Length=1011
TTTCATTAAATGGAATTCACCAAATTTGTATAGTTTCCAAGATTGTTTACCAAGATTACC
AGTCCCAAGTGTAAAAGACACAATGAAAAGATATTTAAGATCAGTTCGACCACTTTTGGA
TGATAAAACTTTTGAAAGAGTCAGCAAAGAAGCTGATGAATTTGAGAAAGGAATTGGAAA
GAAACTTCAACGATACCTTGTGCTAAAAAGTTGGTGGGCATCAAATTATGTCAGTGATTG
GTGGGAAACTTATGTTTATCATCGAAGTAGAAATCCAATAATTGTCAATTCAAACATTTA
TGGCACTGATAATACAATGTTTAAAACTAAAAATCAAATTGCAAAATCAGCAAATATGAT
TTATTGGACACTTCAATTTAGAAGAAAACTTCAGAGACAAGAACTCACACCAATTTTAGT
TCAAGGAATGGTTCCATTGTGTTCATGGCAATATGAAAGAATGTTCAATACAGCTCGAAT
TCCTGGCGTTGAAGGAGATAAAATTGTTCATCATAATGATAGTTACCATATTATTATTTA
TCATAAAGGATGTTACTTTAAACTTCCAATTTATTACAAAGGTCGGTTATTGAAACCAAA
AGAAATTGAATATCAATTGAATCATATTGTTAATGGAAAACATAATGTAACACATGCTGA
AAAATATTTAGCTTCATTAACTGCTTGGGATCGTTCTAAATGGGCAGAAACACGTGATAA
ATATTTCTCAAGTGGAATTAATAAAATTTCATTGGATTTAATAGAAAGTTCTGCATTTTT
CCTTGACCTTCATGATAAACCCTATGATATGGATTTAAACGATGTTGAAAAAATGAGAGT
TTATTCAAAACAATGCCTGCATGGTGAAATTTATAATATTTGGTTTGATAAAAGTTTCTG
TTTATCTGCTGGAACAAATGCTATCTATTCAATGAATGCAGAACATTCTTGGGCTGATGC
ACCTGTACTTGGGCATTTATTTGAATATGTTCAATTTGCTGATATGAATGG
>g14113.t3 Gene=g14113 Length=309
MKRYLRSVRPLLDDKTFERVSKEADEFEKGIGKKLQRYLVLKSWWASNYVSDWWETYVYH
RSRNPIIVNSNIYGTDNTMFKTKNQIAKSANMIYWTLQFRRKLQRQELTPILVQGMVPLC
SWQYERMFNTARIPGVEGDKIVHHNDSYHIIIYHKGCYFKLPIYYKGRLLKPKEIEYQLN
HIVNGKHNVTHAEKYLASLTAWDRSKWAETRDKYFSSGINKISLDLIESSAFFLDLHDKP
YDMDLNDVEKMRVYSKQCLHGEIYNIWFDKSFCLSAGTNAIYSMNAEHSWADAPVLGHLF
EYVQFADMN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g14113.t3 | Gene3D | G3DSA:3.30.559.70 | - | 48 | 309 | 0 |
| 2 | g14113.t3 | PANTHER | PTHR22589:SF31 | CARNITINE PALMITOYLTRANSFERASE I | 1 | 306 | 0 |
| 3 | g14113.t3 | PANTHER | PTHR22589 | CARNITINE O-ACYLTRANSFERASE | 1 | 306 | 0 |
| 1 | g14113.t3 | Pfam | PF00755 | Choline/Carnitine o-acyltransferase | 1 | 304 | 0 |
| 4 | g14113.t3 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 1 | 305 | 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 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.
