General information for g2119.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 3-oxoacyl-[acyl-carrier-protein] synthase, mitochondrial.
Parent gene
- The parent gene g2119 is located on chr_3: 15329895..15331211 (- 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 | g2119 | g2119.t1 | TTS | g2119.t1 | 15329858 | 15329858 |
| chr_3 | g2119 | g2119.t1 | isoform | g2119.t1 | 15329895 | 15330599 |
| chr_3 | g2119 | g2119.t1 | exon | g2119.t1.exon1 | 15329895 | 15330599 |
| chr_3 | g2119 | g2119.t1 | cds | g2119.t1.CDS1 | 15329895 | 15330599 |
| chr_3 | g2119 | g2119.t1 | TSS | g2119.t1 | 15331229 | 15331229 |
Sequences
>g2119.t1 Gene=g2119 Length=705
ATGGTTTGTGGTGCAACAGAAGCTTGTATAAGTCCTTTATCGATAGCTGGATTTTGTAGA
TTGAAAGCATTATCAACATCTTTTAATGATAAACCGATTGAAGCATCAAGACCATTTGAT
AAAAAGAGAGATGGTTTTGTGATGGGTGAAGGTGCATGCATTTTTATCATTGAAGAACTA
GAACATGCATTAAAAAGAAATGCAACAATCTATGGAGAAGTTCTTGGCTATGGATTATCA
GGTGATGGTTCGCATTTGACTGCACCAAGCGAAGATGGATTAGGAGCAAGATTAGCGATG
GAACGTGCTTTAAAAGATGCAAAATTAAATCCTTCTGATATATCTTATGTGAATGCCCAT
GCAACTTCAACTCCACTTGGTGATTCAATTGAAGCGCGGGCGATACAATCAATTTTCGGA
AGCAATGAAAAACTTGCAATAAGTTCAACGAAAGGATCTCATGGTCATTTATTAGGTGCA
GCTGGAACACTAGAATGTTTATTTACTCTCTTAGCATGTCGTGATGGACTATTGCCTCCA
ACAATAAATTTTAATGAACCTGAAGATGAATTTAAAAATGTTAATTTTGTACCAAATATA
TCACAAAAATGGGAAACGAGTAAACGAAGGGTAGCTGTAAAGAATAGCTTTGGTTTTGGT
GGAACGAATAGTTCTCTAATTGTAGGTGAATATCGTCATGTATAA
>g2119.t1 Gene=g2119 Length=234
MVCGATEACISPLSIAGFCRLKALSTSFNDKPIEASRPFDKKRDGFVMGEGACIFIIEEL
EHALKRNATIYGEVLGYGLSGDGSHLTAPSEDGLGARLAMERALKDAKLNPSDISYVNAH
ATSTPLGDSIEARAIQSIFGSNEKLAISSTKGSHGHLLGAAGTLECLFTLLACRDGLLPP
TINFNEPEDEFKNVNFVPNISQKWETSKRRVAVKNSFGFGGTNSSLIVGEYRHV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2119.t1 | CDD | cd00834 | KAS_I_II | 1 | 228 | 0e+00 |
| 7 | g2119.t1 | Gene3D | G3DSA:3.40.47.10 | - | 1 | 234 | 0e+00 |
| 3 | g2119.t1 | PANTHER | PTHR11712:SF297 | 3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE, MITOCHONDRIAL | 1 | 230 | 0e+00 |
| 4 | g2119.t1 | PANTHER | PTHR11712 | POLYKETIDE SYNTHASE-RELATED | 1 | 230 | 0e+00 |
| 2 | g2119.t1 | Pfam | PF00109 | Beta-ketoacyl synthase, N-terminal domain | 1 | 63 | 0e+00 |
| 1 | g2119.t1 | Pfam | PF02801 | Beta-ketoacyl synthase, C-terminal domain | 71 | 184 | 0e+00 |
| 6 | g2119.t1 | SMART | SM00825 | Beta-ketoacyl synthase | 4 | 233 | 1e-07 |
| 5 | g2119.t1 | SUPERFAMILY | SSF53901 | Thiolase-like | 33 | 231 | 0e+00 |
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 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.
