General information for g17482.t50
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.t50 | TSS | g17482.t50 | 13657411 | 13657411 |
| chr_4 | g17482 | g17482.t50 | isoform | g17482.t50 | 13657464 | 13659248 |
| chr_4 | g17482 | g17482.t50 | exon | g17482.t50.exon1 | 13657464 | 13657527 |
| chr_4 | g17482 | g17482.t50 | cds | g17482.t50.CDS1 | 13657464 | 13657527 |
| chr_4 | g17482 | g17482.t50 | exon | g17482.t50.exon2 | 13657853 | 13657967 |
| chr_4 | g17482 | g17482.t50 | cds | g17482.t50.CDS2 | 13657853 | 13657967 |
| chr_4 | g17482 | g17482.t50 | exon | g17482.t50.exon3 | 13658022 | 13658056 |
| chr_4 | g17482 | g17482.t50 | cds | g17482.t50.CDS3 | 13658022 | 13658056 |
| chr_4 | g17482 | g17482.t50 | exon | g17482.t50.exon4 | 13658133 | 13658509 |
| chr_4 | g17482 | g17482.t50 | cds | g17482.t50.CDS4 | 13658133 | 13658509 |
| chr_4 | g17482 | g17482.t50 | exon | g17482.t50.exon5 | 13658572 | 13658624 |
| chr_4 | g17482 | g17482.t50 | cds | g17482.t50.CDS5 | 13658572 | 13658624 |
| chr_4 | g17482 | g17482.t50 | exon | g17482.t50.exon6 | 13658682 | 13659083 |
| chr_4 | g17482 | g17482.t50 | cds | g17482.t50.CDS6 | 13658682 | 13659083 |
| chr_4 | g17482 | g17482.t50 | exon | g17482.t50.exon7 | 13659155 | 13659248 |
| chr_4 | g17482 | g17482.t50 | cds | g17482.t50.CDS7 | 13659155 | 13659248 |
| chr_4 | g17482 | g17482.t50 | TTS | g17482.t50 | 13659279 | 13659279 |
Sequences
>g17482.t50 Gene=g17482 Length=1140
ATGGATGTGCCAATTCCAGAAATTTTAAAGAAACCAATGGAAGTTGATGAAAAAATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGAATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTGAAACATTCAAAATCATGGATGACATTAAAATTGGTGTCAAT
TATCTACTTCAGACGAATAATTCTTACACATTTTCTATCGAATGTGCTCTTATGAATGTG
ATTGAAGACAATGACGTTATTGTTATCGGATGTTGTGGCCAATGGGGTACGCGTGCAGAA
AACATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATAAAGAACCAGGAGAGCAA
ATTGAAGTAGAAGAAACCCGAATATTTTTTGAGCAATATCACCCAAAAGTTTTCTTTTTG
ACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAACAATTTGGAAATTTG
TGTCAGGAATTCGATTGTCTCTTTGTGGTTGATTGTGTTATAACAGTTGGATGCACTCCA
GTTTATGTTGATAAATGGAAAATTGATGTTGCTTTTATGGGAACACAAAAGGTTCTTAAT
GCTCCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCTTTTGAAAAAATCGTTAAA
AGAAAGTCACCAGTAAAAAGCTACAATTATGATGCAGTAAATCTCAGTAAATATTGGAAA
TCGGGCGATGAACCAAGAGTTTATCATCATACAGTTTGCTCAACATTACTCTACGGTTTG
CGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAAGCTTCTTGGAAAAATCAT
CAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAATGGTTTGGAATTATTCATT
ACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTGTAAAAGTTCCTGAGAATATCGAT
GCAAATGAAATTATAAAACATTCAATGAATGAATATAATGTTGAAATCAGTGGTGGAATG
GGACAAACTAAAGGAAAAATTTTAAGAGTTGGACTTATGGGAATAAATTGTAAAGAAATC
GTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCAACGAGAAAGTTGAATGAAGAATAA
>g17482.t50 Gene=g17482 Length=379
MDVPIPEILKKPMEVDEKIMTGAGPSNYHPRIRHAMSLPVLGHLHPETFKIMDDIKIGVN
YLLQTNNSYTFSIECALMNVIEDNDVIVIGCCGQWGTRAENIAKRLNADVKVINKEPGEQ
IEVEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFDCLFVVDCVITVGCTP
VYVDKWKIDVAFMGTQKVLNAPPGISPITFSARAFEKIVKRKSPVKSYNYDAVNLSKYWK
SGDEPRVYHHTVCSTLLYGLREAIAIFIENGGLEASWKNHQNVAKHFYTLLEKNGLELFI
TDPKNRVPSVTAVKVPENIDANEIIKHSMNEYNVEISGGMGQTKGKILRVGLMGINCKEI
VAECVAKILIEATRKLNEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g17482.t50 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 15 | 367 | 1.4E-126 |
| 7 | g17482.t50 | Gene3D | G3DSA:3.40.640.10 | - | 29 | 270 | 1.4E-126 |
| 2 | g17482.t50 | PANTHER | PTHR21152 | AMINOTRANSFERASE CLASS V | 2 | 371 | 3.8E-109 |
| 3 | g17482.t50 | PANTHER | PTHR21152:SF22 | SERINE–PYRUVATE AMINOTRANSFERASE | 2 | 371 | 3.8E-109 |
| 8 | g17482.t50 | PIRSF | PIRSF000524 | SPT | 11 | 378 | 1.1E-91 |
| 1 | g17482.t50 | Pfam | PF00266 | Aminotransferase class-V | 42 | 361 | 3.5E-40 |
| 5 | g17482.t50 | ProSitePatterns | PS00595 | Aminotransferases class-V pyridoxal-phosphate attachment site. | 188 | 208 | - |
| 4 | g17482.t50 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 6 | 365 | 6.64E-78 |
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 transcript has been annotated with K00830 (alanine-glyoxylate transaminase / serine-glyoxylate transaminase / serine-pyruvate transaminase)
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. There were no conditions that were differentially expressed