General information for g14113.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Carnitine O-palmitoyltransferase 1, liver 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.t1 | TTS | g14113.t1 | 34779318 | 34779318 |
| chr_1 | g14113 | g14113.t1 | isoform | g14113.t1 | 34779391 | 34782183 |
| chr_1 | g14113 | g14113.t1 | exon | g14113.t1.exon1 | 34779391 | 34779587 |
| chr_1 | g14113 | g14113.t1 | cds | g14113.t1.CDS1 | 34779391 | 34779587 |
| chr_1 | g14113 | g14113.t1 | exon | g14113.t1.exon2 | 34779647 | 34780172 |
| chr_1 | g14113 | g14113.t1 | cds | g14113.t1.CDS2 | 34779647 | 34780172 |
| chr_1 | g14113 | g14113.t1 | exon | g14113.t1.exon3 | 34780296 | 34780434 |
| chr_1 | g14113 | g14113.t1 | cds | g14113.t1.CDS3 | 34780296 | 34780434 |
| chr_1 | g14113 | g14113.t1 | exon | g14113.t1.exon4 | 34780490 | 34780575 |
| chr_1 | g14113 | g14113.t1 | cds | g14113.t1.CDS4 | 34780490 | 34780575 |
| chr_1 | g14113 | g14113.t1 | exon | g14113.t1.exon5 | 34780629 | 34781554 |
| chr_1 | g14113 | g14113.t1 | cds | g14113.t1.CDS5 | 34780629 | 34781554 |
| chr_1 | g14113 | g14113.t1 | exon | g14113.t1.exon6 | 34781607 | 34781785 |
| chr_1 | g14113 | g14113.t1 | cds | g14113.t1.CDS6 | 34781607 | 34781785 |
| chr_1 | g14113 | g14113.t1 | exon | g14113.t1.exon7 | 34781906 | 34782183 |
| chr_1 | g14113 | g14113.t1 | cds | g14113.t1.CDS7 | 34781906 | 34782183 |
| chr_1 | g14113 | g14113.t1 | TSS | g14113.t1 | 34783048 | 34783048 |
Sequences
>g14113.t1 Gene=g14113 Length=2331
ATGGCAGAAGCTCATCAAGCCACATCATATTCATCATCATTGATTCATGAGCATACTGAT
GCAAATCACGACCAAGAAGTACTTCAATTAGTCTGGGAATCAGGTGTGCGATCATGGAAG
AAAAGATTTGCAAGATTTCGCGCCAAAGTTAGAAATGGTGTTTATCCAGCACATTTAGAA
AGTCTTTGGCTTCTTATTGCAATTACGACTGGACTTCATTTTTATGTAAACAAGACACCT
TTCGACGTTGTAAACACAATCTTTAAATTTATGCCTGACAAAACATTTGGATGGGAAATT
GCAGCAAGTTCTATTGGTGGAGTCTTTTATTGGTTACTTATTTGTTTGATTATGAGATAT
ACACTGAAATTGCTGCTATGTTATAGAGGCTTTTTATTTGAAAGTCGGGGAAAGAAAATA
AGTTTGAAAACAAAAGTTTGGGCGATTTTATTAAAAATTTTCATTAAATGGAATTCACCA
AATTTGTATAGTTTCCAAGATTGTTTACCAAGATTACCAGTCCCAAGTGTAAAAGACACA
ATGAAAAGATATTTAAGATCAGTTCGACCACTTTTGGATGATAAAACTTTTGAAAGAGTC
AGCAAAGAAGCTGATGAATTTGAGAAAGGAATTGGAAAGAAACTTCAACGATACCTTGTG
CTAAAAAGTTGGTGGGCATCAAATTATGTCAGTGATTGGTGGGAAACTTATGTTTATCAT
CGAAGTAGAAATCCAATAATTGTCAATTCAAACATTTATGGCACTGATAATACAATGTTT
AAAACTAAAAATCAAATTGCAAAATCAGCAAATATGATTTATTGGACACTTCAATTTAGA
AGAAAACTTCAGAGACAAGAACTCACACCAATTTTAGTTCAAGGAATGGTTCCATTGTGT
TCATGGCAATATGAAAGAATGTTCAATACAGCTCGAATTCCTGGCGTTGAAGGAGATAAA
ATTGTTCATCATAATGATAGTTACCATATTATTATTTATCATAAAGGATGTTACTTTAAA
CTTCCAATTTATTACAAAGGTCGGTTATTGAAACCAAAAGAAATTGAATATCAATTGAAT
CATATTGTTAATGGAAAACATAATGTAACACATGCTGAAAAATATTTAGCTTCATTAACT
GCTTGGGATCGTTCTAAATGGGCAGAAACACGTGATAAATATTTCTCAAGTGGAATTAAT
AAAATTTCATTGGATTTAATAGAAAGTTCTGCATTTTTCCTTGACCTTCATGATAAACCC
TATGATATGGATTTAAACGATGTTGAAAAAATGAGAGTTTATTCAAAACAATGCCTGCAT
GGTGAAATTTATAATATTTGGTTTGATAAAAGTTTCTGTTTATCTGCTGGAACAAATGCT
ATCTATTCAATGAATGCAGAACATTCTTGGGCTGATGCACCTGTACTTGGGCATTTATTT
GAATATGTTCAATTTGCTGATATGAATGGATACGATGATGATGGAAATCTTTTGGGAACA
ATGGATTGCAAGCCACCACTTCCATCTCGATTAAAATGGGATTTTAGTGATCAACAGTTG
GTTAAAAATATCGATCAAGCTTATGAAGATGCTTTGAAAATTGTCAATGATGTCGATCAC
ATGGTACTAAAACATGCAGCATTTGGCAAAGGATTTATCAAAACATGTCGTTTATCACCG
GATGCTTTTATTCAAATGGCACTTCAACTTGCTTATTATCGTGATTTTGGAAAATTCTCT
CTTACATATGAAGCATCAATGACACGTTTGTATCGTGAAGGTAGAACTGAGACAGTCAGA
TCGTGCACAATTGAATCATGCGAGTGGGTAAAATCTATGGAAGATCCAACAAAAACACCT
CAAGAAAGAGTTCGTTTACTTAAAGAAGCTTGTACTAAGCACCAGCAATTATATTTGGAA
GCAATGACAGGCAAAGGGGTAGACCGACATCTTTTTTGTCTTTTTGTTGTTTCAAAATAT
TTAGAAGTTGATTCACCATTTCTAAAAGAAGTAATTAGTGAACCATGGAGATTGAGTACA
TCACAGACACCTCATGGACAATTGCCGTATACTAATTTAGTGAAATATCCAGGATTAGTT
GGTAGTGGTGGTGGCTTCGGACCTGTCAGTTATGATGGTTATAGTGTGTCTTACATTATT
TCTGGTGAAAATTGCATTTTCTTCCATCTTTCAAGTACAAAAAGTTGTCCATTAACAAAT
ACTGAAAGGTTTGGACAGAGACTCTTCAAAGCTCTCGACGATATTAAAACACAATTTGAA
TTAGTCAACAAAGAACAAAAACTAGATGAGAACCGTAATGGAACTCACTAA
>g14113.t1 Gene=g14113 Length=776
MAEAHQATSYSSSLIHEHTDANHDQEVLQLVWESGVRSWKKRFARFRAKVRNGVYPAHLE
SLWLLIAITTGLHFYVNKTPFDVVNTIFKFMPDKTFGWEIAASSIGGVFYWLLICLIMRY
TLKLLLCYRGFLFESRGKKISLKTKVWAILLKIFIKWNSPNLYSFQDCLPRLPVPSVKDT
MKRYLRSVRPLLDDKTFERVSKEADEFEKGIGKKLQRYLVLKSWWASNYVSDWWETYVYH
RSRNPIIVNSNIYGTDNTMFKTKNQIAKSANMIYWTLQFRRKLQRQELTPILVQGMVPLC
SWQYERMFNTARIPGVEGDKIVHHNDSYHIIIYHKGCYFKLPIYYKGRLLKPKEIEYQLN
HIVNGKHNVTHAEKYLASLTAWDRSKWAETRDKYFSSGINKISLDLIESSAFFLDLHDKP
YDMDLNDVEKMRVYSKQCLHGEIYNIWFDKSFCLSAGTNAIYSMNAEHSWADAPVLGHLF
EYVQFADMNGYDDDGNLLGTMDCKPPLPSRLKWDFSDQQLVKNIDQAYEDALKIVNDVDH
MVLKHAAFGKGFIKTCRLSPDAFIQMALQLAYYRDFGKFSLTYEASMTRLYREGRTETVR
SCTIESCEWVKSMEDPTKTPQERVRLLKEACTKHQQLYLEAMTGKGVDRHLFCLFVVSKY
LEVDSPFLKEVISEPWRLSTSQTPHGQLPYTNLVKYPGLVGSGGGFGPVSYDGYSVSYII
SGENCIFFHLSSTKSCPLTNTERFGQRLFKALDDIKTQFELVNKEQKLDENRNGTH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g14113.t1 | Gene3D | G3DSA:3.30.559.40 | - | 168 | 756 | 2.9E-198 |
| 10 | g14113.t1 | Gene3D | G3DSA:3.30.559.70 | - | 228 | 541 | 2.9E-198 |
| 3 | g14113.t1 | PANTHER | PTHR22589:SF31 | CARNITINE PALMITOYLTRANSFERASE I | 65 | 759 | 2.7E-270 |
| 4 | g14113.t1 | PANTHER | PTHR22589 | CARNITINE O-ACYLTRANSFERASE | 65 | 759 | 2.7E-270 |
| 2 | g14113.t1 | Pfam | PF16484 | Carnitine O-palmitoyltransferase N-terminus | 1 | 47 | 4.4E-16 |
| 1 | g14113.t1 | Pfam | PF00755 | Choline/Carnitine o-acyltransferase | 169 | 756 | 7.1E-184 |
| 12 | g14113.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 54 | - |
| 18 | g14113.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 55 | 76 | - |
| 15 | g14113.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 77 | 95 | - |
| 16 | g14113.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 96 | 120 | - |
| 13 | g14113.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 121 | 139 | - |
| 17 | g14113.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 140 | 157 | - |
| 14 | g14113.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 158 | 776 | - |
| 9 | g14113.t1 | ProSitePatterns | PS00439 | Acyltransferases ChoActase / COT / CPT family signature 1. | 169 | 184 | - |
| 8 | g14113.t1 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 161 | 535 | 2.06E-106 |
| 7 | g14113.t1 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 537 | 764 | 1.67E-74 |
| 6 | g14113.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 54 | 76 | - |
| 5 | g14113.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 96 | 118 | - |
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.
