Gene loci information

Transcript annotation

  • This transcript has been annotated as 3-ketoacyl-CoA thiolase, mitochondrial.

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_3 g3180 g3180.t5 TSS g3180.t5 23501050 23501050
chr_3 g3180 g3180.t5 isoform g3180.t5 23501147 23502618
chr_3 g3180 g3180.t5 exon g3180.t5.exon1 23501147 23501165
chr_3 g3180 g3180.t5 cds g3180.t5.CDS1 23501147 23501165
chr_3 g3180 g3180.t5 exon g3180.t5.exon2 23501311 23502167
chr_3 g3180 g3180.t5 cds g3180.t5.CDS2 23501311 23502167
chr_3 g3180 g3180.t5 exon g3180.t5.exon3 23502238 23502618
chr_3 g3180 g3180.t5 cds g3180.t5.CDS3 23502238 23502432
chr_3 g3180 g3180.t5 TTS g3180.t5 23502737 23502737

Sequences

>g3180.t5 Gene=g3180 Length=1257
ATGTCAGCTGCAACAAAAGGAGTTTTCATTGTCAGTGCTCGCCGAACAGCCTTTGGTACA
TTTGGCGGTACTTTCAAGACAACAACACCAACTGCGATGCAAACAGTCGCTGCACAAGCT
GCTCTTAAAGATGCCGGTGTCTCACCCGATAAAGTCGATACTGTTGTCATTGGAAATATC
ATGCCACACACTCAGACTGATGGAATTTATATGGCACGTCACGTTGCACTCAACTGTGGA
ATTCCACAAGAAAGACCAGCACTTGCTGTAAATCGTTTATGCGGATCTGGATTCCAAAGT
ATTGTCAACGGTGCTCATGACATTCTTGTATCAGGAGCAAAAGTTGTTTTGACTGGAGGT
GTTGAATCAATGAGTTTGGCACCTTATGTTGCTAGAAATATGCGTTTTGGTTCACCTCTT
GGTGTTAATCCTGTTCTTGAAGATTCATTATGGGCTGGCTTAACTGATACTTATTGTAAA
TTGCCTATGGCATTAACTGCTGAAAAATTGGGTGAACAATACAAAATCACAAGAGACAAA
GTCGATGAATTTTCATACAATTCACAACAAAGATGGGCAAAAGCAAATGCTGAAGGTGCA
TTTACAGCTGAAATTACACCATTTCCAACAAAAGTCAAAGGCAAAGAAGTTGAATTTAAA
GTTGATGAACATCCACGTCCACAGACAACACTCGAAGGTTTAGCAAAATTGCCAAGTTTG
TTCAAAAAAGATGGCCTTGTGACTGCAGGAACAGCGTCAGGAATTTCAGACGGTGCAAGC
GCAGTTGTGCTTGCTTCAGAAGAGGCTTTAAAGGAATACAATTTAAAACCACTTGCAAGA
CTTGTCGCTTATTCAACTGTTGGCGTTGATCCATCTATTATGGGAATCGGTCCAGTTCCA
GCTATTCAAAATGTTTTAAAATTATCAGGCTGGAATTTGAATGATTTGGATTTGGTTGAA
ATCAATGAAGCATTTGCTGCTCAAACTTTGGCTTGTGCTGAAGCATTGAAACTTGATCTT
AATAAACTAAATGTTAACGGTGGTGCTGTTGCATTAGGTAAAATTTTTTGAATCATGGAA
TTTTTCAAATTTGAAATTATTTAAAATATTTTTACAGGTCATCCTCTTGGAGCATCTGGA
TCAAGAATTACAGCACATTTAGTGCATGAAATGAAGAGAAAAGGCTATAAGAAATCAGTT
GGATCAGCTTGCATTGGTGGTGGACAAGGAATTGCATTATTGCTTGAGTCAGTTTAA

>g3180.t5 Gene=g3180 Length=356
MSAATKGVFIVSARRTAFGTFGGTFKTTTPTAMQTVAAQAALKDAGVSPDKVDTVVIGNI
MPHTQTDGIYMARHVALNCGIPQERPALAVNRLCGSGFQSIVNGAHDILVSGAKVVLTGG
VESMSLAPYVARNMRFGSPLGVNPVLEDSLWAGLTDTYCKLPMALTAEKLGEQYKITRDK
VDEFSYNSQQRWAKANAEGAFTAEITPFPTKVKGKEVEFKVDEHPRPQTTLEGLAKLPSL
FKKDGLVTAGTASGISDGASAVVLASEEALKEYNLKPLARLVAYSTVGVDPSIMGIGPVP
AIQNVLKLSGWNLNDLDLVEINEAFAAQTLACAEALKLDLNKLNVNGGAVALGKIF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g3180.t5 CDD cd00751 thiolase 9 353 5.97216E-156
8 g3180.t5 Gene3D G3DSA:3.40.47.10 - 9 281 1.1E-120
7 g3180.t5 Gene3D G3DSA:3.40.47.10 - 132 353 1.1E-120
3 g3180.t5 PANTHER PTHR18919:SF107 3-KETOACYL-COA THIOLASE, MITOCHONDRIAL 3 353 3.3E-160
4 g3180.t5 PANTHER PTHR18919 ACETYL-COA C-ACYLTRANSFERASE 3 353 3.3E-160
9 g3180.t5 PIRSF PIRSF000429 Ac-CoA_Ac_transf 2 354 2.8E-101
2 g3180.t5 Pfam PF00108 Thiolase, N-terminal domain 8 268 1.0E-77
1 g3180.t5 Pfam PF02803 Thiolase, C-terminal domain 275 354 1.2E-29
11 g3180.t5 ProSitePatterns PS00098 Thiolases acyl-enzyme intermediate signature. 90 108 -
6 g3180.t5 SUPERFAMILY SSF53901 Thiolase-like 8 275 1.2E-72
5 g3180.t5 SUPERFAMILY SSF53901 Thiolase-like 276 353 3.33E-25
12 g3180.t5 TIGRFAM TIGR01930 AcCoA-C-Actrans: acetyl-CoA C-acyltransferase 10 353 1.7E-107

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
GO:0016747 acyltransferase activity, transferring groups other than amino-acyl groups 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.

Raw TPM values