General information for g14115.t14
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 g14115 is located on chr_1: 34788223..34789540 (- 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 | g14115 | g14115.t14 | isoform | g14115.t14 | 34787653 | 34789540 |
| chr_1 | g14115 | g14115.t14 | exon | g14115.t14.exon1 | 34787653 | 34788708 |
| chr_1 | g14115 | g14115.t14 | cds | g14115.t14.CDS1 | 34787655 | 34788708 |
| chr_1 | g14115 | g14115.t14 | exon | g14115.t14.exon2 | 34788797 | 34789087 |
| chr_1 | g14115 | g14115.t14 | cds | g14115.t14.CDS2 | 34788797 | 34789065 |
| chr_1 | g14115 | g14115.t14 | exon | g14115.t14.exon3 | 34789517 | 34789540 |
| chr_1 | g14115 | g14115.t14 | TSS | g14115.t14 | 34789544 | 34789544 |
| chr_1 | g14115 | g14115.t14 | TTS | g14115.t14 | NA | NA |
Sequences
>g14115.t14 Gene=g14115 Length=1371
AGTGCACAGCGCCTGAGCAGAGAGAGAGAGAAATTAAAAGAGAAAAATGTCTGGTTTTCG
TGCATCTTCTACTACTGAAATTAAAGATTATATCGATGCGCATCACAATGACGAAATTCT
TCAGTTAGTTTGGTTGTCCGGTTTAAAGTCCTGGAAACATCGCTACGCAGTATTTAAGCG
CAAAGTCCAGAATGGTGTTTACCCCGCTCATTTAGAGTCTCTTTTCGTCATCATTGTCGT
TGTTATGGCATTTCATTTTTCGTCTACAAAAGTTCCATATGACTTACTTAATACCTTCAT
TTCACTTTTACCGAGTAATTTGATCGACTGGCAGATACTGTTATGTGTTATCATTGGATT
TTTATGGTGGTTGTCGATATGTTTGACATTACGTTATACATTAAAATTATTGCTAATGTA
CAAGGGATATTTATTTGAAACTCGAGGAAAAGGAGTTAGTTTAAAGACAAAAGTGTGGGC
AATTTTAGTTAAACTTTTGCTCAAATGGAATTCCCCGGTATTGTACAGTTTTCAAGGATC
TCTACCTCGTTTGTCTGTTCCTGATGTTAACGATACAATTAAACGCTACCTCGCTTCAGT
TCGTCCAATTTATGACGATGAAACTTATGATAAAGTGTGTAAAGATGCTGAATTTTTTGA
AAACGGAATTGCAAAGAAGTTGCAACGGTATTTGGTGTTGAAGAGTTGGTGGGCAGATAA
CTATGTATCAGATTGGTGGGAAGAGTATGCTTATCTAAAAAGCCGTGAACCGTTGATGTA
TGGTAGTAATTATTACGGTAGTGATACTATTTATCCACCAACAAATAGTCAAGCTGCACG
AGCTGCTAATCTCGCTTATCTCATGCTTAAATTTCGAGATAAAATTGTTCATCAAGAATT
GCCACCAATTATGCTACAATCAATGGTTCCTCTTTGCTCATCTCAATATGAAAGACTTTT
CAATACAGCTCGAATTCCAGGAATTGAAAGTGATAAAATTATTCACGTTGAAGATTCAAA
GCACATTGTGGTGATGCATAAAGGATCTTATTATAAACTTGATGTTTATTATCGTGAACA
TATGCTCAATGCAGCTGATTTGCAATACCAAATTGAAGAAATTTTACAACTCAAACCAAC
AACATCATCAACTGAGAAACATTTACCATCATTGACTGCTTGGAATCGTACTAAATGGGC
AGAAGTTCGAGATAAATTTTTCTCAACTGGAATCAATAAAGAATCTTTAGAAGCAATTGA
AAGTGCAGCATTTATAATTGCATTAGATGATGAGCCTTATATTTTTGACCTTAAATCATC
ACCAGAAGAGTATGGTCATTATGGAAAGCAATTGCTAGTTGGAAATGGTCA
>g14115.t14 Gene=g14115 Length=441
MSGFRASSTTEIKDYIDAHHNDEILQLVWLSGLKSWKHRYAVFKRKVQNGVYPAHLESLF
VIIVVVMAFHFSSTKVPYDLLNTFISLLPSNLIDWQILLCVIIGFLWWLSICLTLRYTLK
LLLMYKGYLFETRGKGVSLKTKVWAILVKLLLKWNSPVLYSFQGSLPRLSVPDVNDTIKR
YLASVRPIYDDETYDKVCKDAEFFENGIAKKLQRYLVLKSWWADNYVSDWWEEYAYLKSR
EPLMYGSNYYGSDTIYPPTNSQAARAANLAYLMLKFRDKIVHQELPPIMLQSMVPLCSSQ
YERLFNTARIPGIESDKIIHVEDSKHIVVMHKGSYYKLDVYYREHMLNAADLQYQIEEIL
QLKPTTSSTEKHLPSLTAWNRTKWAEVRDKFFSTGINKESLEAIESAAFIIALDDEPYIF
DLKSSPEEYGHYGKQLLVGNG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14115.t14 | Gene3D | G3DSA:3.30.559.40 | - | 166 | 224 | 8.1E-84 |
| 7 | g14115.t14 | Gene3D | G3DSA:3.30.559.70 | - | 225 | 417 | 8.1E-84 |
| 2 | g14115.t14 | PANTHER | PTHR22589:SF31 | CARNITINE PALMITOYLTRANSFERASE I | 55 | 441 | 1.9E-125 |
| 3 | g14115.t14 | PANTHER | PTHR22589 | CARNITINE O-ACYLTRANSFERASE | 55 | 441 | 1.9E-125 |
| 1 | g14115.t14 | Pfam | PF00755 | Choline/Carnitine o-acyltransferase | 166 | 440 | 5.0E-82 |
| 10 | g14115.t14 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 53 | - |
| 13 | g14115.t14 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 54 | 73 | - |
| 11 | g14115.t14 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 74 | 92 | - |
| 12 | g14115.t14 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 115 | - |
| 9 | g14115.t14 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 116 | 441 | - |
| 6 | g14115.t14 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 158 | 441 | 5.28E-89 |
| 5 | g14115.t14 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 51 | 73 | - |
| 4 | g14115.t14 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 115 | - |
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.
