Gene loci information

Transcript annotation

  • This transcript has been annotated as Carnitine O-acetyltransferase.

Parent gene

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_4 g14734 g14734.t2 isoform g14734.t2 2062834 2066700
chr_4 g14734 g14734.t2 exon g14734.t2.exon1 2062834 2063149
chr_4 g14734 g14734.t2 exon g14734.t2.exon2 2063366 2063801
chr_4 g14734 g14734.t2 cds g14734.t2.CDS1 2063366 2063801
chr_4 g14734 g14734.t2 exon g14734.t2.exon3 2064481 2065074
chr_4 g14734 g14734.t2 cds g14734.t2.CDS2 2064481 2065074
chr_4 g14734 g14734.t2 exon g14734.t2.exon4 2065304 2065984
chr_4 g14734 g14734.t2 cds g14734.t2.CDS3 2065304 2065984
chr_4 g14734 g14734.t2 exon g14734.t2.exon5 2066044 2066700
chr_4 g14734 g14734.t2 cds g14734.t2.CDS4 2066044 2066222
chr_4 g14734 g14734.t2 TTS g14734.t2 2066723 2066723
chr_4 g14734 g14734.t2 TSS g14734.t2 NA NA

Sequences

>g14734.t2 Gene=g14734 Length=2684
CTGAGAAAAATTTATTTAATCCCCTCGGTAAAAACAGCTGATTTAACAACATATACAAAA
ATATTTTGAGAAAATTTTACAAATCTCATTGAGAGTAAAGAGAAAAAAAGAAAAAAAAAT
CCAAAAAAAATTCTCCAAACCGCTCAAATTCATTTGTGTTGTGAGAGTGAAAGTGAAAAC
AACAAAAAATAATCAAAAGTACAATCTTTTTCCTTAATGTTTAAAGTTCAAACTAATTTT
TCATTCCAATACTTTACATTCGACTTTTAAATTACAGAACTGTGATTTTATATTTGTTGT
TTCATAACATTACTAAATGCTTCGTGTTTTTAACAAATCAAATCAAATTATAAGAATGTC
ATCAAAAGTTATTACTACAAGCTACTCAAGCATCACAAATCCTCAAAATCTTCCTCATCT
TCCTGTTCCTAAGCTCAATGATACTTTGAAAAAGTTTCTTGATACTGCCGAACCTCATCT
GAGTCCAGCATCATTTGAAAATACAAAAAATGTTGTACGTGAATTTGCAAAGTCTGGAGG
AGTTGGTGAAAAATTGCAAAACTTGTTGGAAAAGAGAGCAAGTGAAAAAGAGAATTGGTT
ATCTGATCCATCATCTAATTGGTGGTTACAATGTGCTTATTTACAATATAGAGATCCAGT
AGTTGTCTGGTCATCACCTGGATTAGTTTTTCCTCAAAGGAAATTTGAAACAAATGAGGA
TAGAGTAAAATATGCTGCTCAAGTTATTTATTCCTCACTACTTTTTAAACAGCAAATCGA
CAACAATCAAATTCCAGTCGAAAAAATGGGTAAAAGTGAACTCGATATGCAGCAATATAA
AAATGTTTTTGGCACTTGTCGCATTCCTGGAACACCTGGTGATTCAATAGAATTTAATCG
TGATTCAAAACATATAGTTATAGTCATTAATGACACATTCTTCAAAGTGCCTGTTTATAA
TAGTGAAGGTGCCATTCTTGGTGAAAATCAACTCTATGAGCAAATTCAACTTTGCATGAA
TGAAGCATTAAAAATTAAAAATCCGCTCAAAATTGGAGTTCTTACTTCTGATAATCGCGA
CAATTGGGCAAAAGCTTACGCTGAATTAATCAAAAATCCTAAGAACGTTGCATCATTGAA
TGAAATTCAAACATCACTTTTTCTCATGTGCATTGATAGAGAAACACCGCAAATCGAAGA
CGATATTGTAACTGCTGAGCATCTGTTTGTAACTGGTGCTGGATCAAGATTTAATTCAGC
TAATCGTTGGTATGACAAGACTATACAATTTATTGTTGGAACTAGAGGAATCAATGGACT
GACTTACGAACATTCACCTGCAGAAGGTGGACCTCTTGCAGTCTTAACTGACAATGTCAT
CAAATACGTAAATGATCAAGAATCTGGAAAAACACGTGTTGCTATTGGCACTGGAAATTT
TGAAAAACCCCAAATGCTTGAATTTGATTCATCACCTCAAATTGAAGAATGTATTAAAAT
TTCATCAGAAAACATTGATAAACTTGCAGGAAATATTGATATGAATTACCTGCACTTTAC
TGATTATGGAAAAAATTTCATCAAAAGTCAAAAATTCTCGCCTGATTCTTTCATTCAAAT
GGCAATTCAATTTGCTTTTTATCGTCTCCATCATGTTCCAGGTGCTCATTATGAAAGTGC
TGGTACAAGACTTTATGTTCATGGTCGTACTGAATGCATTCGATCATGCTCTAAAGAATC
TGTGGCATTTTCTAAAGCCATGGTTGAATCAAAAGATGATAAAGAAAAATTGATAAGAAT
GAAAGAAGCAATTGAGTCACATAAAAAATATGTAAGTCAAGCAGTTCAAGGTTTTGGTAT
TGATCGTCATCTTTTGGGTTTAAAATTGATTGCTAGAGAAAATGGCATTGAAATTCCGGA
ATTATATTCTGATGAAGGCTATGTGAAGTCGTCAACTTATAGACTCAGCACAAGCCAAGT
TGCATCAATTTATGATGCATTCATGTGCTATGGGCCACTTACTCATGATGGCTATGGCTG
CTGCTATTCACCTAGAAATAACGATATTTATTTTGGATTATCAAGCATGAGAAATAATAG
CGAAACAAGCACTGCTAAATTCAAGAAAAGTTTGCAAGAAGCGCTTCAGTTAATGAGAGA
TGTTTTGATTAAAGTTGGAGAACAGCCAATTAAGAGCAAACTTTAAAAAACTTAATTTTA
GAAAAACATTTTTTATACTTACATTGTAAAAGAAGAATTTAAATTTTATACAAATTGAAC
ATAAGGCGATATTCTATTTCGATAAAGTTTTTCACAGAATAAATTTTAATTTAGACAAAA
TTTTGAAAGTACGAACAGAAATCAAATTTTTCTTAAAATTTATTTAAAAATTGTAGCAAA
TTTTATCTATAGAATGAAATATTTGTTGTCAATCTTAATTTTCAATCTGATGAAATTTTC
TGGTTTCACAATTTAATTGGTGAAGACTTTTTTAACTTTCTAAAATTTTTAATCTTAATG
ATTATTTCGTTGTAAAGAAGTGATATAATTTTGAATCGTATAAAGCTGATTGTATATTTT
TACATCTCACTGCAAGTTCTAAAATATTTACTTAAACTCTGTACTTTCTGATATTTTTTG
TTCTATTTTTATAAAAATAAATTGGTGATATGGGCAAAAATAAA

>g14734.t2 Gene=g14734 Length=629
MLRVFNKSNQIIRMSSKVITTSYSSITNPQNLPHLPVPKLNDTLKKFLDTAEPHLSPASF
ENTKNVVREFAKSGGVGEKLQNLLEKRASEKENWLSDPSSNWWLQCAYLQYRDPVVVWSS
PGLVFPQRKFETNEDRVKYAAQVIYSSLLFKQQIDNNQIPVEKMGKSELDMQQYKNVFGT
CRIPGTPGDSIEFNRDSKHIVIVINDTFFKVPVYNSEGAILGENQLYEQIQLCMNEALKI
KNPLKIGVLTSDNRDNWAKAYAELIKNPKNVASLNEIQTSLFLMCIDRETPQIEDDIVTA
EHLFVTGAGSRFNSANRWYDKTIQFIVGTRGINGLTYEHSPAEGGPLAVLTDNVIKYVND
QESGKTRVAIGTGNFEKPQMLEFDSSPQIEECIKISSENIDKLAGNIDMNYLHFTDYGKN
FIKSQKFSPDSFIQMAIQFAFYRLHHVPGAHYESAGTRLYVHGRTECIRSCSKESVAFSK
AMVESKDDKEKLIRMKEAIESHKKYVSQAVQGFGIDRHLLGLKLIARENGIEIPELYSDE
GYVKSSTYRLSTSQVASIYDAFMCYGPLTHDGYGCCYSPRNNDIYFGLSSMRNNSETSTA
KFKKSLQEALQLMRDVLIKVGEQPIKSKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g14734.t2 Gene3D G3DSA:3.30.559.40 - 31 614 0
6 g14734.t2 Gene3D G3DSA:3.30.559.70 - 93 410 0
2 g14734.t2 PANTHER PTHR22589:SF103 CARNITINE O-ACETYL-TRANSFERASE, ISOFORM A 26 621 0
3 g14734.t2 PANTHER PTHR22589 CARNITINE O-ACYLTRANSFERASE 26 621 0
1 g14734.t2 Pfam PF00755 Choline/Carnitine o-acyltransferase 32 613 0
5 g14734.t2 SUPERFAMILY SSF52777 CoA-dependent acyltransferases 30 404 0
4 g14734.t2 SUPERFAMILY SSF52777 CoA-dependent acyltransferases 407 618 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

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.

Raw TPM values