General information for g3180.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 3-ketoacyl-CoA thiolase, mitochondrial.
Parent gene
- The parent gene g3180 is located on chr_3: 23502618..23503388 (+ 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_3 | g3180 | g3180.t1 | TSS | g3180.t1 | 23501050 | 23501050 |
| chr_3 | g3180 | g3180.t1 | isoform | g3180.t1 | 23501147 | 23502618 |
| chr_3 | g3180 | g3180.t1 | exon | g3180.t1.exon1 | 23501147 | 23501165 |
| chr_3 | g3180 | g3180.t1 | cds | g3180.t1.CDS1 | 23501147 | 23501165 |
| chr_3 | g3180 | g3180.t1 | exon | g3180.t1.exon2 | 23501311 | 23502167 |
| chr_3 | g3180 | g3180.t1 | cds | g3180.t1.CDS2 | 23501311 | 23502167 |
| chr_3 | g3180 | g3180.t1 | exon | g3180.t1.exon3 | 23502238 | 23502418 |
| chr_3 | g3180 | g3180.t1 | cds | g3180.t1.CDS3 | 23502238 | 23502418 |
| chr_3 | g3180 | g3180.t1 | exon | g3180.t1.exon4 | 23502479 | 23502618 |
| chr_3 | g3180 | g3180.t1 | cds | g3180.t1.CDS4 | 23502479 | 23502618 |
| chr_3 | g3180 | g3180.t1 | TTS | g3180.t1 | 23502737 | 23502737 |
Sequences
>g3180.t1 Gene=g3180 Length=1197
ATGTCAGCTGCAACAAAAGGAGTTTTCATTGTCAGTGCTCGCCGAACAGCCTTTGGTACA
TTTGGCGGTACTTTCAAGACAACAACACCAACTGCGATGCAAACAGTCGCTGCACAAGCT
GCTCTTAAAGATGCCGGTGTCTCACCCGATAAAGTCGATACTGTTGTCATTGGAAATATC
ATGCCACACACTCAGACTGATGGAATTTATATGGCACGTCACGTTGCACTCAACTGTGGA
ATTCCACAAGAAAGACCAGCACTTGCTGTAAATCGTTTATGCGGATCTGGATTCCAAAGT
ATTGTCAACGGTGCTCATGACATTCTTGTATCAGGAGCAAAAGTTGTTTTGACTGGAGGT
GTTGAATCAATGAGTTTGGCACCTTATGTTGCTAGAAATATGCGTTTTGGTTCACCTCTT
GGTGTTAATCCTGTTCTTGAAGATTCATTATGGGCTGGCTTAACTGATACTTATTGTAAA
TTGCCTATGGCATTAACTGCTGAAAAATTGGGTGAACAATACAAAATCACAAGAGACAAA
GTCGATGAATTTTCATACAATTCACAACAAAGATGGGCAAAAGCAAATGCTGAAGGTGCA
TTTACAGCTGAAATTACACCATTTCCAACAAAAGTCAAAGGCAAAGAAGTTGAATTTAAA
GTTGATGAACATCCACGTCCACAGACAACACTCGAAGGTTTAGCAAAATTGCCAAGTTTG
TTCAAAAAAGATGGCCTTGTGACTGCAGGAACAGCGTCAGGAATTTCAGACGGTGCAAGC
GCAGTTGTGCTTGCTTCAGAAGAGGCTTTAAAGGAATACAATTTAAAACCACTTGCAAGA
CTTGTCGCTTATTCAACTGTTGGCGTTGATCCATCTATTATGGGAATCGGTCCAGTTCCA
GCTATTCAAAATGTTTTAAAATTATCAGGCTGGAATTTGAATGATTTGGATTTGGTTGAA
ATCAATGAAGCATTTGCTGCTCAAACTTTGGCTTGTGCTGAAGCATTGAAACTTGATCTT
AATAAACTAAATGTTAACGGTGGTGCTGTTGCATTAGGTCATCCTCTTGGAGCATCTGGA
TCAAGAATTACAGCACATTTAGTGCATGAAATGAAGAGAAAAGGCTATAAGAAATCAGTT
GGATCAGCTTGCATTGGTGGTGGACAAGGAATTGCATTATTGCTTGAGTCAGTTTAA
>g3180.t1 Gene=g3180 Length=398
MSAATKGVFIVSARRTAFGTFGGTFKTTTPTAMQTVAAQAALKDAGVSPDKVDTVVIGNI
MPHTQTDGIYMARHVALNCGIPQERPALAVNRLCGSGFQSIVNGAHDILVSGAKVVLTGG
VESMSLAPYVARNMRFGSPLGVNPVLEDSLWAGLTDTYCKLPMALTAEKLGEQYKITRDK
VDEFSYNSQQRWAKANAEGAFTAEITPFPTKVKGKEVEFKVDEHPRPQTTLEGLAKLPSL
FKKDGLVTAGTASGISDGASAVVLASEEALKEYNLKPLARLVAYSTVGVDPSIMGIGPVP
AIQNVLKLSGWNLNDLDLVEINEAFAAQTLACAEALKLDLNKLNVNGGAVALGHPLGASG
SRITAHLVHEMKRKGYKKSVGSACIGGGQGIALLLESV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3180.t1 | CDD | cd00751 | thiolase | 9 | 396 | 0.0 |
| 7 | g3180.t1 | Gene3D | G3DSA:3.40.47.10 | - | 9 | 281 | 1.2E-141 |
| 8 | g3180.t1 | Gene3D | G3DSA:3.40.47.10 | - | 132 | 394 | 1.2E-141 |
| 3 | g3180.t1 | PANTHER | PTHR18919:SF107 | 3-KETOACYL-COA THIOLASE, MITOCHONDRIAL | 3 | 397 | 4.8E-187 |
| 4 | g3180.t1 | PANTHER | PTHR18919 | ACETYL-COA C-ACYLTRANSFERASE | 3 | 397 | 4.8E-187 |
| 9 | g3180.t1 | PIRSF | PIRSF000429 | Ac-CoA_Ac_transf | 2 | 398 | 1.2E-121 |
| 2 | g3180.t1 | Pfam | PF00108 | Thiolase, N-terminal domain | 8 | 268 | 1.4E-77 |
| 1 | g3180.t1 | Pfam | PF02803 | Thiolase, C-terminal domain | 275 | 396 | 6.5E-51 |
| 11 | g3180.t1 | ProSitePatterns | PS00098 | Thiolases acyl-enzyme intermediate signature. | 90 | 108 | - |
| 12 | g3180.t1 | ProSitePatterns | PS00737 | Thiolases signature 2. | 344 | 360 | - |
| 5 | g3180.t1 | SUPERFAMILY | SSF53901 | Thiolase-like | 8 | 275 | 2.34E-72 |
| 6 | g3180.t1 | SUPERFAMILY | SSF53901 | Thiolase-like | 276 | 396 | 8.02E-43 |
| 13 | g3180.t1 | TIGRFAM | TIGR01930 | AcCoA-C-Actrans: acetyl-CoA C-acyltransferase | 10 | 396 | 3.1E-128 |
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 transcript has been annotated with K07508 (acetyl-CoA acyltransferase 2)
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.
