General information for g14120.t3
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 g14120 is located on chr_1: 34807828..34809740 (+ 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 | g14120 | g14120.t3 | isoform | g14120.t3 | 34806106 | 34809396 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon1 | 34806106 | 34806383 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS1 | 34806106 | 34806383 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon2 | 34806454 | 34806638 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS2 | 34806454 | 34806638 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon3 | 34806710 | 34807638 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS3 | 34806710 | 34807638 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon4 | 34807699 | 34807724 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS4 | 34807699 | 34807724 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon5 | 34807828 | 34807887 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS5 | 34807828 | 34807887 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon6 | 34808140 | 34808199 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS6 | 34808140 | 34808199 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon7 | 34808406 | 34808544 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS7 | 34808406 | 34808544 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon8 | 34808611 | 34809136 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS8 | 34808611 | 34809136 |
| chr_1 | g14120 | g14120.t3 | exon | g14120.t3.exon9 | 34809200 | 34809396 |
| chr_1 | g14120 | g14120.t3 | cds | g14120.t3.CDS9 | 34809200 | 34809396 |
| chr_1 | g14120 | g14120.t3 | TTS | g14120.t3 | 34809736 | 34809736 |
| chr_1 | g14120 | g14120.t3 | TSS | g14120.t3 | NA | NA |
Sequences
>g14120.t3 Gene=g14120 Length=2400
ATGGCTGAAGCCCATCAAGCCGTTGCCTTTAGTTTTGCTATCACTCATGAAGGATTTAAT
GTCAACTATGATCGTGAAGTTCTTCATCTTGTCTGGGAATCAGGTGTGAGATCATGGAAG
AAAAGAGTCGCAAGAATAAAAGCTGGAATTAAAAATGGAGCTTATCCAGCTCATTTAGAA
TCACTTTATGTTATTATGATATTAGTAACATTACTACATTTCTCAAACAAAACAGTTCCA
TATGATTTGGTCAATACATTTATGAATGTAATGCCAAGTAATGGATCATTTTGGCACTTT
CTCTCATGTGTTCTTGTATCACTTTTTTATTGGATTTTGATTTGTTTAATTATGCGTTAT
TCATTGAAAGGATTATTGGTCTATAAAGGCTGGATGTATGAAGCACGTGGATCAGGTTCT
AAACCAAGTCTTAAAACAAAAATTTGGTTTGTCCTTGTTAAAGTCTTTAAAAAATGGAAT
AGCCCGGGATTATACAGTTTTCAATCATCACTTCCTCGTTTACCACTTCCGAGTGTGAAT
GACACAATGACAAGATGGTTGAGATCTGTTCGACCACTTGTTGATGATGCGACTTATGAG
AAATTTGTAAGAGAAGCTGCTGAGTTTGAGAAAGGAATTGGGAAGAAATTGCAACGTTAT
TTGATATTAAAAAGCTGGTGGTCAACAAACTATGTATCAGATTGGTGGGAAGAGTATGTT
TATTTGCGAGGTCGCAGTCCACTTTGTGTAAATAGCAACTTTTATGGTGTCGATGCCATT
TTCACACATCCATCAAAAATACAAGCAGCAAGAGCAGGCAGTGTTGTTAATTTACTTTTG
CAATTCAGAAGAAGCATTGACAGACAAGAACTTGAGCCAATTATGGTTCAAGGATTGATT
CCATTATGTTCATGGCAATATGAGAGAACTTTCAACACAGCTCGAATTCCAGGCATTGAA
ACTGATAAGATTGTGCATTATAAAGATTCAAATCACATTGTCGTCATTCATAAAGGTTGC
TATTATAAAATGCTGATTTATCATAAAGGAAGATTGCTCAAACCATGCGAATTGCAATAT
CAATTTGAGCAAATTTTACAATCAAAAGCAACACCAGCTCGTGGAGAAGATTTCTTGGCT
TCATTGACTGCATGGGATAGACCAAAGTGGGCACAAGCACGAGAAAAATATTTTTCACGT
GGTGTTAATAAGACTTCACTTTATTTGATCGAAAGTGCAGCATTTGTTGTTTCATTGGAT
GATGAACCTTTTGAATTTGATATGGCAAGACCAGAAAAACTTGATGAATTCGGACGTAAA
CTTTTACATGGAAAAGGATGCGATAGATGGTTTGATAAGAGTTTCACTTTATGTGTTGCA
TCTAATGGACGAATTGGATTTAATGCTGAGCACACTTGGGCGGATGCACCAATAATGGCT
CACATTTGGGAACATATTGTTCTTGAAGAGGCAAAACGGGCTGATGCACCAGTGCTTGGC
CACGTTTGGGAATGTGCTCTCGCTGATGATCATGAAGGATATGATGAAAATGGTAATACT
CTAGGAAAAATTGAAGTTCTTCCACCAGTACCTACACGACTTTCGTGGGATTTCAATGAC
GAATCTTTAGTGAAGACAATTGATATGGCTTATGATGATGCACAGAGAATAATCAATGAT
GTTGATTTGAGAATCCTTGTACATGATGCATATGGCAAAGGATTTATGAAAACATGTCGT
TGTTCACCAGATGCTTTCATTCAAATGGCACTTCAACTTGCTTATTATCGTGATTATGGA
AAATTTTCACTCACATATGAAGCATCAATGACACGATTGTTCAGAGAAGGTAGAACTGAG
ACAGTTCGTCCTTGTACAATTGAATCTGCAGCATGGGTAAAGGCCATGGAAAATAAAGAT
GTTACAGCTACTGAAAGAGTGAAACTTTTATATGATGCATGCAAAAGACATCAGCAAGGA
TATCAAGATGCTATGTGTGGACGAGGAGTTGACCGTCATCTTTTCTGCCTCTATGTTGTT
TCAAAATATTTGGAAGTTGATTCACCTTTCTTGAAAGAAATCTTGAGTGAACCATGGAGA
CTTTCAACTTCACAAACACCTCATGGACAAACTCCGAAAATGGATCCAAAGAAAAATCCA
CACTTTATTAGTGCTGGTGGCGGCTTTGGACCTGTCAGCGTTGATGGTTATGGTGTTTCA
TACATAATCGCAGGCGAAGATTTAATATTTTTCCACATATCCAGCCTTAAGAGCTGTAAT
GTCACAGATTCAGAGAGATTTGCACAGCAAATTTGTAAAGCATTAACAGACATAAAGTTG
CTATTTGAGCAATATAATCTAGAACAGAAGAAAATTCTACAGAATGGTACATCACATTAG
>g14120.t3 Gene=g14120 Length=799
MAEAHQAVAFSFAITHEGFNVNYDREVLHLVWESGVRSWKKRVARIKAGIKNGAYPAHLE
SLYVIMILVTLLHFSNKTVPYDLVNTFMNVMPSNGSFWHFLSCVLVSLFYWILICLIMRY
SLKGLLVYKGWMYEARGSGSKPSLKTKIWFVLVKVFKKWNSPGLYSFQSSLPRLPLPSVN
DTMTRWLRSVRPLVDDATYEKFVREAAEFEKGIGKKLQRYLILKSWWSTNYVSDWWEEYV
YLRGRSPLCVNSNFYGVDAIFTHPSKIQAARAGSVVNLLLQFRRSIDRQELEPIMVQGLI
PLCSWQYERTFNTARIPGIETDKIVHYKDSNHIVVIHKGCYYKMLIYHKGRLLKPCELQY
QFEQILQSKATPARGEDFLASLTAWDRPKWAQAREKYFSRGVNKTSLYLIESAAFVVSLD
DEPFEFDMARPEKLDEFGRKLLHGKGCDRWFDKSFTLCVASNGRIGFNAEHTWADAPIMA
HIWEHIVLEEAKRADAPVLGHVWECALADDHEGYDENGNTLGKIEVLPPVPTRLSWDFND
ESLVKTIDMAYDDAQRIINDVDLRILVHDAYGKGFMKTCRCSPDAFIQMALQLAYYRDYG
KFSLTYEASMTRLFREGRTETVRPCTIESAAWVKAMENKDVTATERVKLLYDACKRHQQG
YQDAMCGRGVDRHLFCLYVVSKYLEVDSPFLKEILSEPWRLSTSQTPHGQTPKMDPKKNP
HFISAGGGFGPVSVDGYGVSYIIAGEDLIFFHISSLKSCNVTDSERFAQQICKALTDIKL
LFEQYNLEQKKILQNGTSH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g14120.t3 | Gene3D | G3DSA:3.30.559.40 | - | 170 | 779 | 2.5E-204 |
| 11 | g14120.t3 | Gene3D | G3DSA:3.30.559.70 | - | 230 | 564 | 2.5E-204 |
| 3 | g14120.t3 | PANTHER | PTHR22589:SF31 | CARNITINE PALMITOYLTRANSFERASE I | 58 | 492 | 0.0 |
| 5 | g14120.t3 | PANTHER | PTHR22589 | CARNITINE O-ACYLTRANSFERASE | 58 | 492 | 0.0 |
| 4 | g14120.t3 | PANTHER | PTHR22589:SF31 | CARNITINE PALMITOYLTRANSFERASE I | 494 | 784 | 0.0 |
| 6 | g14120.t3 | PANTHER | PTHR22589 | CARNITINE O-ACYLTRANSFERASE | 494 | 784 | 0.0 |
| 2 | g14120.t3 | Pfam | PF16484 | Carnitine O-palmitoyltransferase N-terminus | 1 | 47 | 7.4E-24 |
| 1 | g14120.t3 | Pfam | PF00755 | Choline/Carnitine o-acyltransferase | 171 | 779 | 2.0E-195 |
| 13 | g14120.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 54 | - |
| 17 | g14120.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 55 | 76 | - |
| 15 | g14120.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 77 | 95 | - |
| 16 | g14120.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 96 | 122 | - |
| 14 | g14120.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 123 | 799 | - |
| 9 | g14120.t3 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 164 | 558 | 1.5E-115 |
| 10 | g14120.t3 | SUPERFAMILY | SSF52777 | CoA-dependent acyltransferases | 560 | 786 | 2.28E-76 |
| 8 | g14120.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 53 | 75 | - |
| 7 | g14120.t3 | 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 transcript has been annotated with K08765 (carnitine O-palmitoyltransferase 1, liver isoform)
Pathway
- This transcript belongs to the following pathways
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. There were no conditions that were differentially expressed