General information for g3180.t2
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.t2 | TSS | g3180.t2 | 23501050 | 23501050 |
| chr_3 | g3180 | g3180.t2 | isoform | g3180.t2 | 23501147 | 23502165 |
| chr_3 | g3180 | g3180.t2 | exon | g3180.t2.exon1 | 23501147 | 23501169 |
| chr_3 | g3180 | g3180.t2 | exon | g3180.t2.exon2 | 23501311 | 23502165 |
| chr_3 | g3180 | g3180.t2 | cds | g3180.t2.CDS1 | 23501388 | 23502164 |
| chr_3 | g3180 | g3180.t2 | TTS | g3180.t2 | 23502737 | 23502737 |
Sequences
>g3180.t2 Gene=g3180 Length=878
ATGTCAGCTGCAACAAAAGGTTAGAGTTTTCATTGTCAGTGCTCGCCGAACAGCCTTTGG
TACATTTGGCGGTACTTTCAAGACAACAACACCAACTGCGATGCAAACAGTCGCTGCACA
AGCTGCTCTTAAAGATGCCGGTGTCTCACCCGATAAAGTCGATACTGTTGTCATTGGAAA
TATCATGCCACACACTCAGACTGATGGAATTTATATGGCACGTCACGTTGCACTCAACTG
TGGAATTCCACAAGAAAGACCAGCACTTGCTGTAAATCGTTTATGCGGATCTGGATTCCA
AAGTATTGTCAACGGTGCTCATGACATTCTTGTATCAGGAGCAAAAGTTGTTTTGACTGG
AGGTGTTGAATCAATGAGTTTGGCACCTTATGTTGCTAGAAATATGCGTTTTGGTTCACC
TCTTGGTGTTAATCCTGTTCTTGAAGATTCATTATGGGCTGGCTTAACTGATACTTATTG
TAAATTGCCTATGGCATTAACTGCTGAAAAATTGGGTGAACAATACAAAATCACAAGAGA
CAAAGTCGATGAATTTTCATACAATTCACAACAAAGATGGGCAAAAGCAAATGCTGAAGG
TGCATTTACAGCTGAAATTACACCATTTCCAACAAAAGTCAAAGGCAAAGAAGTTGAATT
TAAAGTTGATGAACATCCACGTCCACAGACAACACTCGAAGGTTTAGCAAAATTGCCAAG
TTTGTTCAAAAAAGATGGCCTTGTGACTGCAGGAACAGCGTCAGGAATTTCAGACGGTGC
AAGCGCAGTTGTGCTTGCTTCAGAAGAGGCTTTAAAGGAATACAATTTAAAACCACTTGC
AAGACTTGTCGCTTATTCAACTGTTGGCGTTGATCCAT
>g3180.t2 Gene=g3180 Length=259
MQTVAAQAALKDAGVSPDKVDTVVIGNIMPHTQTDGIYMARHVALNCGIPQERPALAVNR
LCGSGFQSIVNGAHDILVSGAKVVLTGGVESMSLAPYVARNMRFGSPLGVNPVLEDSLWA
GLTDTYCKLPMALTAEKLGEQYKITRDKVDEFSYNSQQRWAKANAEGAFTAEITPFPTKV
KGKEVEFKVDEHPRPQTTLEGLAKLPSLFKKDGLVTAGTASGISDGASAVVLASEEALKE
YNLKPLARLVAYSTVGVDP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3180.t2 | CDD | cd00751 | thiolase | 3 | 259 | 2.61287E-113 |
| 6 | g3180.t2 | Gene3D | G3DSA:3.40.47.10 | - | 1 | 259 | 1.6E-78 |
| 2 | g3180.t2 | PANTHER | PTHR18919:SF107 | 3-KETOACYL-COA THIOLASE, MITOCHONDRIAL | 2 | 259 | 1.5E-113 |
| 3 | g3180.t2 | PANTHER | PTHR18919 | ACETYL-COA C-ACYLTRANSFERASE | 2 | 259 | 1.5E-113 |
| 1 | g3180.t2 | Pfam | PF00108 | Thiolase, N-terminal domain | 2 | 236 | 1.4E-68 |
| 5 | g3180.t2 | ProSitePatterns | PS00098 | Thiolases acyl-enzyme intermediate signature. | 58 | 76 | - |
| 4 | g3180.t2 | SUPERFAMILY | SSF53901 | Thiolase-like | 2 | 243 | 1.14E-65 |
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. There were no conditions that were differentially expressed