General information for g17482.t62
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine–pyruvate aminotransferase, mitochondrial.
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.t62 | TSS | g17482.t62 | 13657411 | 13657411 |
| chr_4 | g17482 | g17482.t62 | isoform | g17482.t62 | 13657464 | 13659248 |
| chr_4 | g17482 | g17482.t62 | exon | g17482.t62.exon1 | 13657464 | 13657527 |
| chr_4 | g17482 | g17482.t62 | cds | g17482.t62.CDS1 | 13657464 | 13657527 |
| chr_4 | g17482 | g17482.t62 | exon | g17482.t62.exon2 | 13657853 | 13657960 |
| chr_4 | g17482 | g17482.t62 | cds | g17482.t62.CDS2 | 13657853 | 13657960 |
| chr_4 | g17482 | g17482.t62 | exon | g17482.t62.exon3 | 13658133 | 13658509 |
| chr_4 | g17482 | g17482.t62 | cds | g17482.t62.CDS3 | 13658133 | 13658509 |
| chr_4 | g17482 | g17482.t62 | exon | g17482.t62.exon4 | 13658572 | 13658624 |
| chr_4 | g17482 | g17482.t62 | cds | g17482.t62.CDS4 | 13658572 | 13658624 |
| chr_4 | g17482 | g17482.t62 | exon | g17482.t62.exon5 | 13658682 | 13659083 |
| chr_4 | g17482 | g17482.t62 | cds | g17482.t62.CDS5 | 13658682 | 13659083 |
| chr_4 | g17482 | g17482.t62 | exon | g17482.t62.exon6 | 13659155 | 13659248 |
| chr_4 | g17482 | g17482.t62 | cds | g17482.t62.CDS6 | 13659155 | 13659248 |
| chr_4 | g17482 | g17482.t62 | TTS | g17482.t62 | 13659279 | 13659279 |
Sequences
>g17482.t62 Gene=g17482 Length=1098
ATGGATGTGCCAATTCCAGAAATTTTAAAGAAACCAATGGAAGTTGATGAAAAAATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGAATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTGAAACATTCAAAATCATGGATGACATTAAAATTGCTATCGAA
TGTGCTCTTATGAATGTGATTGAAGACAATGACGTTATTGTTATCGGATGTTGTGGCCAA
TGGGGTACGCGTGCAGAAAACATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAAT
AAAGAACCAGGAGAGCAAATTGAAGTAGAAGAAACCCGAATATTTTTTGAGCAATATCAC
CCAAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTG
GAACAATTTGGAAATTTGTGTCAGGAATTCGATTGTCTCTTTGTGGTTGATTGTGTTATA
ACAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAAAATTGATGTTGCTTTTATGGGA
ACACAAAAGGTTCTTAATGCTCCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCT
TTTGAAAAAATCGTTAAAAGAAAGTCACCAGTAAAAAGCTACAATTATGATGCAGTAAAT
CTCAGTAAATATTGGAAATCGGGCGATGAACCAAGAGTTTATCATCATACAGTTTGCTCA
ACATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAA
GCTTCTTGGAAAAATCATCAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAAT
GGTTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTGTAAAA
GTTCCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATATAATGTT
GAAATCAGTGGTGGAATGGGACAAACTAAAGGAAAAATTTTAAGAGTTGGACTTATGGGA
ATAAATTGTAAAGAAATCGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCAACGAGA
AAGTTGAATGAAGAATAA
>g17482.t62 Gene=g17482 Length=365
MDVPIPEILKKPMEVDEKIMTGAGPSNYHPRIRHAMSLPVLGHLHPETFKIMDDIKIAIE
CALMNVIEDNDVIVIGCCGQWGTRAENIAKRLNADVKVINKEPGEQIEVEETRIFFEQYH
PKVFFLTHGESSTGMLQQNLEQFGNLCQEFDCLFVVDCVITVGCTPVYVDKWKIDVAFMG
TQKVLNAPPGISPITFSARAFEKIVKRKSPVKSYNYDAVNLSKYWKSGDEPRVYHHTVCS
TLLYGLREAIAIFIENGGLEASWKNHQNVAKHFYTLLEKNGLELFITDPKNRVPSVTAVK
VPENIDANEIIKHSMNEYNVEISGGMGQTKGKILRVGLMGINCKEIVAECVAKILIEATR
KLNEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g17482.t62 | Gene3D | G3DSA:3.40.640.10 | - | 57 | 256 | 1.4E-107 |
| 8 | g17482.t62 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 258 | 353 | 1.4E-107 |
| 3 | g17482.t62 | PANTHER | PTHR21152 | AMINOTRANSFERASE CLASS V | 2 | 59 | 3.4E-101 |
| 5 | g17482.t62 | PANTHER | PTHR21152:SF22 | SERINE–PYRUVATE AMINOTRANSFERASE | 2 | 59 | 3.4E-101 |
| 2 | g17482.t62 | PANTHER | PTHR21152 | AMINOTRANSFERASE CLASS V | 57 | 357 | 3.4E-101 |
| 4 | g17482.t62 | PANTHER | PTHR21152:SF22 | SERINE–PYRUVATE AMINOTRANSFERASE | 57 | 357 | 3.4E-101 |
| 10 | g17482.t62 | PIRSF | PIRSF000524 | SPT | 11 | 57 | 1.8E-5 |
| 11 | g17482.t62 | PIRSF | PIRSF000524 | SPT | 56 | 364 | 1.2E-81 |
| 1 | g17482.t62 | Pfam | PF00266 | Aminotransferase class-V | 58 | 347 | 8.0E-39 |
| 7 | g17482.t62 | ProSitePatterns | PS00595 | Aminotransferases class-V pyridoxal-phosphate attachment site. | 174 | 194 | - |
| 6 | g17482.t62 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 11 | 358 | 5.46E-74 |
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