General information for g17482.t117
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine–pyruvate aminotransferase.
Parent gene
- The parent gene g17482 is located on chr_4: 13658711..13665993 (+ 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_4 | g17482 | g17482.t117 | TSS | g17482.t117 | 13657411 | 13657411 |
| chr_4 | g17482 | g17482.t117 | isoform | g17482.t117 | 13658364 | 13659248 |
| chr_4 | g17482 | g17482.t117 | exon | g17482.t117.exon1 | 13658364 | 13658509 |
| chr_4 | g17482 | g17482.t117 | cds | g17482.t117.CDS1 | 13658495 | 13658509 |
| chr_4 | g17482 | g17482.t117 | exon | g17482.t117.exon2 | 13658572 | 13658624 |
| chr_4 | g17482 | g17482.t117 | cds | g17482.t117.CDS2 | 13658572 | 13658624 |
| chr_4 | g17482 | g17482.t117 | exon | g17482.t117.exon3 | 13658682 | 13659083 |
| chr_4 | g17482 | g17482.t117 | cds | g17482.t117.CDS3 | 13658682 | 13659083 |
| chr_4 | g17482 | g17482.t117 | exon | g17482.t117.exon4 | 13659165 | 13659248 |
| chr_4 | g17482 | g17482.t117 | cds | g17482.t117.CDS4 | 13659165 | 13659174 |
| chr_4 | g17482 | g17482.t117 | TTS | g17482.t117 | 13659279 | 13659279 |
Sequences
>g17482.t117 Gene=g17482 Length=685
TGTTGCAACAAAATTTGGAACAATTTGGAAATTTGTGTCAGGAATTCGATTGTCTCTTTG
TGGTTGATTGTGTTATAACAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAAAATTG
ATGTTGCTTTTATGGGAACACAAAAGGTTCTTAATGCTCCACCAGGAATTTCTCCGATTA
CATTCAGTGCACGAGCTTTTGAAAAAATCGTTAAAAGAAAGTCACCAGTAAAAAGCTACA
ATTATGATGCAGTAAATCTCAGTAAATATTGGAAATCGGGCGATGAACCAAGAGTTTATC
ATCATACAGTTTGCTCAACATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTG
AGAATGGTGGTTTAGAAGCTTCTTGGAAAAATCATCAAAATGTTGCCAAACATTTTTATA
CTCTGTTGGAAAAGAATGGTTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCAT
CAGTTACAGCTGTAAAAGTTCCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAA
TGAATGAATATAATGTTGAAATCAGTGGTGGAATGGGACAAACTAAAGGAAAAATTTTAA
GATGGGAATAAATTGTAAAGAAATCGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGC
AACGAGAAAGTTGAATGAAGAATAA
>g17482.t117 Gene=g17482 Length=159
MGTQKVLNAPPGISPITFSARAFEKIVKRKSPVKSYNYDAVNLSKYWKSGDEPRVYHHTV
CSTLLYGLREAIAIFIENGGLEASWKNHQNVAKHFYTLLEKNGLELFITDPKNRVPSVTA
VKVPENIDANEIIKHSMNEYNVEISGGMGQTKGKILRWE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g17482.t117 | Gene3D | G3DSA:3.40.640.10 | - | 1 | 78 | 0 |
| 5 | g17482.t117 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 80 | 157 | 0 |
| 2 | g17482.t117 | PANTHER | PTHR21152 | AMINOTRANSFERASE CLASS V | 2 | 157 | 0 |
| 3 | g17482.t117 | PANTHER | PTHR21152:SF22 | SERINE–PYRUVATE AMINOTRANSFERASE | 2 | 157 | 0 |
| 1 | g17482.t117 | Pfam | PF00266 | Aminotransferase class-V | 1 | 148 | 0 |
| 4 | g17482.t117 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 2 | 157 | 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:0003824 | catalytic 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. There were no conditions that were differentially expressed