General information for g14115.t1
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.t1 | isoform | g14115.t1 | 34786514 | 34789065 |
| chr_1 | g14115 | g14115.t1 | exon | g14115.t1.exon1 | 34786514 | 34787197 |
| chr_1 | g14115 | g14115.t1 | cds | g14115.t1.CDS1 | 34786514 | 34787197 |
| chr_1 | g14115 | g14115.t1 | exon | g14115.t1.exon2 | 34787259 | 34787397 |
| chr_1 | g14115 | g14115.t1 | cds | g14115.t1.CDS2 | 34787259 | 34787397 |
| chr_1 | g14115 | g14115.t1 | exon | g14115.t1.exon3 | 34787455 | 34787540 |
| chr_1 | g14115 | g14115.t1 | cds | g14115.t1.CDS3 | 34787455 | 34787540 |
| chr_1 | g14115 | g14115.t1 | exon | g14115.t1.exon4 | 34787601 | 34788708 |
| chr_1 | g14115 | g14115.t1 | cds | g14115.t1.CDS4 | 34787601 | 34788708 |
| chr_1 | g14115 | g14115.t1 | exon | g14115.t1.exon5 | 34788797 | 34789065 |
| chr_1 | g14115 | g14115.t1 | cds | g14115.t1.CDS5 | 34788797 | 34789065 |
| chr_1 | g14115 | g14115.t1 | TSS | g14115.t1 | 34789544 | 34789544 |
| chr_1 | g14115 | g14115.t1 | TTS | g14115.t1 | NA | NA |
Sequences
>g14115.t1 Gene=g14115 Length=2286
ATGTCTGGTTTTCGTGCATCTTCTACTACTGAAATTAAAGATTATATCGATGCGCATCAC
AATGACGAAATTCTTCAGTTAGTTTGGTTGTCCGGTTTAAAGTCCTGGAAACATCGCTAC
GCAGTATTTAAGCGCAAAGTCCAGAATGGTGTTTACCCCGCTCATTTAGAGTCTCTTTTC
GTCATCATTGTCGTTGTTATGGCATTTCATTTTTCGTCTACAAAAGTTCCATATGACTTA
CTTAATACCTTCATTTCACTTTTACCGAGTAATTTGATCGACTGGCAGATACTGTTATGT
GTTATCATTGGATTTTTATGGTGGTTGTCGATATGTTTGACATTACGTTATACATTAAAA
TTATTGCTAATGTACAAGGGATATTTATTTGAAACTCGAGGAAAAGGAGTTAGTTTAAAG
ACAAAAGTGTGGGCAATTTTAGTTAAACTTTTGCTCAAATGGAATTCCCCGGTATTGTAC
AGTTTTCAAGGATCTCTACCTCGTTTGTCTGTTCCTGATGTTAACGATACAATTAAACGC
TACCTCGCTTCAGTTCGTCCAATTTATGACGATGAAACTTATGATAAAGTGTGTAAAGAT
GCTGAATTTTTTGAAAACGGAATTGCAAAGAAGTTGCAACGGTATTTGGTGTTGAAGAGT
TGGTGGGCAGATAACTATGTATCAGATTGGTGGGAAGAGTATGCTTATCTAAAAAGCCGT
GAACCGTTGATGTATGGTAGTAATTATTACGGTAGTGATACTATTTATCCACCAACAAAT
AGTCAAGCTGCACGAGCTGCTAATCTCGCTTATCTCATGCTTAAATTTCGAGATAAAATT
GTTCATCAAGAATTGCCACCAATTATGCTACAATCAATGGTTCCTCTTTGCTCATCTCAA
TATGAAAGACTTTTCAATACAGCTCGAATTCCAGGAATTGAAAGTGATAAAATTATTCAC
GTTGAAGATTCAAAGCACATTGTGGTGATGCATAAAGGATCTTATTATAAACTTGATGTT
TATTATCGTGAACATATGCTCAATGCAGCTGATTTGCAATACCAAATTGAAGAAATTTTA
CAACTCAAACCAACAACATCATCAACTGAGAAACATTTACCATCATTGACTGCTTGGAAT
CGTACTAAATGGGCAGAAGTTCGAGATAAATTTTTCTCAACTGGAATCAATAAAGAATCT
TTAGAAGCAATTGAAAGTGCAGCATTTATAATTGCATTAGATGATGAGCCTTATATTTTT
GACCTTAAATCATCACCAGAAGAGTATGGTCATTATGGAAAGCAATTGCTAGTTGGAAAT
GGTCACAATCGTTGGTTTGACAAGAGTTTCAATTTATGTGTTGGAAGTAATGGAAAGGCT
GGAATTCATGGTGAACATACATGGGCAGATGCTTCAATTGTTTCTCATTTATTGGAAGAT
ACAGTTTGTGATGATTATTCGTGTTATGATTCTAATGGAAGATTACTTGTTGCACCATCA
ATTAAAGTAAAAACGTTTAAAAAACTTCAATGGGATTTAAAAGATACTTTATTACAACAC
TCTGTAGAAGCAGCTTATGAAGATGCGATCAAAATTCTTGAAGACATTGACCATCAAATT
ATCAATCACAATCAATTTGGCAAAGGGTTTATTAAAAAATGTCGTGTTTCACCGGATGCA
TTTATTCAAATGGCACTTCAACTTGCTTATTATCGTGATTATGGAAAATTTTCACTTACT
TATGAGGCATCAACGACACGTTTGTACCGTGAAGGCAGAACCGAAACAGTCAGATCGTGC
ACAATTGAATCAAGTAAATGGGTTAAAGCTATGGAAAATCCAGAATGCACGAATGAGGAA
AAAATTCGTTTATTAAGAGAGGCATGCAATAAGCACCAAAAAAGTTATTTGGACTCAATG
ACAGGAAAAGGAATCGATCGTCATCTTTTTTGTCTTTATATTGTTTCTAAATATTTAGAA
GTTGACTCACCATTTTTGGATAAAGTATTTAGTGAACCATGGCGTTTAACTACATCACAG
ACACCATTAGGTCAAACACCTAAAACAGACATAAATAAATTTAAACAACTTTATACAGCC
AGTGGTGGATTTGGACCTGTCGTTTCAGATGGTTATGGAGTTTCATATATAATTTTGAGA
GATGATATAATTTTCTTTCATGTATCCAGTAAAAAAAGCTGCTCAGTTACTAACACAGAC
AGATTCGGAAAACAAATTGTCAAAGCAATGTCTGACATCAAACAGTTATTTGAACTTGCA
AATTAA
>g14115.t1 Gene=g14115 Length=761
MSGFRASSTTEIKDYIDAHHNDEILQLVWLSGLKSWKHRYAVFKRKVQNGVYPAHLESLF
VIIVVVMAFHFSSTKVPYDLLNTFISLLPSNLIDWQILLCVIIGFLWWLSICLTLRYTLK
LLLMYKGYLFETRGKGVSLKTKVWAILVKLLLKWNSPVLYSFQGSLPRLSVPDVNDTIKR
YLASVRPIYDDETYDKVCKDAEFFENGIAKKLQRYLVLKSWWADNYVSDWWEEYAYLKSR
EPLMYGSNYYGSDTIYPPTNSQAARAANLAYLMLKFRDKIVHQELPPIMLQSMVPLCSSQ
YERLFNTARIPGIESDKIIHVEDSKHIVVMHKGSYYKLDVYYREHMLNAADLQYQIEEIL
QLKPTTSSTEKHLPSLTAWNRTKWAEVRDKFFSTGINKESLEAIESAAFIIALDDEPYIF
DLKSSPEEYGHYGKQLLVGNGHNRWFDKSFNLCVGSNGKAGIHGEHTWADASIVSHLLED
TVCDDYSCYDSNGRLLVAPSIKVKTFKKLQWDLKDTLLQHSVEAAYEDAIKILEDIDHQI
INHNQFGKGFIKKCRVSPDAFIQMALQLAYYRDYGKFSLTYEASTTRLYREGRTETVRSC
TIESSKWVKAMENPECTNEEKIRLLREACNKHQKSYLDSMTGKGIDRHLFCLYIVSKYLE
VDSPFLDKVFSEPWRLTTSQTPLGQTPKTDINKFKQLYTASGGFGPVVSDGYGVSYIILR
DDIIFFHVSSKKSCSVTNTDRFGKQIVKAMSDIKQLFELAN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g14115.t1 | Gene3D | G3DSA:3.30.559.40 | - | 165 | 754 | 1.0E-202 |
| 9 | g14115.t1 | Gene3D | G3DSA:3.30.559.70 | - | 225 | 539 | 1.0E-202 |
| 2 | g14115.t1 | PANTHER | PTHR22589:SF31 | CARNITINE PALMITOYLTRANSFERASE I | 56 | 758 | 2.9E-271 |
| 3 | g14115.t1 | PANTHER | PTHR22589 | CARNITINE O-ACYLTRANSFERASE | 56 | 758 | 2.9E-271 |
| 1 | g14115.t1 | Pfam | PF00755 | Choline/Carnitine o-acyltransferase | 166 | 754 | 3.5E-193 |
| 11 | g14115.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 53 | - |
| 15 | g14115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 54 | 73 | - |
| 13 | g14115.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 74 | 92 | - |
| 14 | g14115.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 115 | - |
| 12 | g14115.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 116 | 761 | - |
| 8 | g14115.t1 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 158 | 527 | 2.56E-114 |
| 7 | g14115.t1 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 535 | 758 | 3.0E-76 |
| 6 | g14115.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 51 | 73 | - |
| 4 | g14115.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 115 | - |
| 5 | g14115.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 143 | 162 | - |
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.
