General information for g17482.t29
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t29 | TSS | g17482.t29 | 13657411 | 13657411 |
| chr_4 | g17482 | g17482.t29 | isoform | g17482.t29 | 13657464 | 13659248 |
| chr_4 | g17482 | g17482.t29 | exon | g17482.t29.exon1 | 13657464 | 13657527 |
| chr_4 | g17482 | g17482.t29 | exon | g17482.t29.exon2 | 13657853 | 13657971 |
| chr_4 | g17482 | g17482.t29 | cds | g17482.t29.CDS1 | 13657946 | 13657971 |
| chr_4 | g17482 | g17482.t29 | exon | g17482.t29.exon3 | 13658022 | 13658071 |
| chr_4 | g17482 | g17482.t29 | cds | g17482.t29.CDS2 | 13658022 | 13658071 |
| chr_4 | g17482 | g17482.t29 | exon | g17482.t29.exon4 | 13658133 | 13658509 |
| chr_4 | g17482 | g17482.t29 | cds | g17482.t29.CDS3 | 13658133 | 13658509 |
| chr_4 | g17482 | g17482.t29 | exon | g17482.t29.exon5 | 13658572 | 13658624 |
| chr_4 | g17482 | g17482.t29 | cds | g17482.t29.CDS4 | 13658572 | 13658624 |
| chr_4 | g17482 | g17482.t29 | exon | g17482.t29.exon6 | 13658682 | 13659248 |
| chr_4 | g17482 | g17482.t29 | cds | g17482.t29.CDS5 | 13658682 | 13659087 |
| chr_4 | g17482 | g17482.t29 | TTS | g17482.t29 | 13659279 | 13659279 |
Sequences
>g17482.t29 Gene=g17482 Length=1230
ATGGATGTGCCAATTCCAGAAATTTTAAAGAAACCAATGGAAGTTGATGAAAAAATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGAATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTGAAACATTCAAAATCATGGATGACATTAAAATTGGTGTCAAG
TCATTATCTACTTCAGACGAATAATTCTTACACATTTTGTATATCTGGATCAGCTATCGA
ATGTGCTCTTATGAATGTGATTGAAGACAATGACGTTATTGTTATCGGATGTTGTGGCCA
ATGGGGTACGCGTGCAGAAAACATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAA
TAAAGAACCAGGAGAGCAAATTGAAGTAGAAGAAACCCGAATATTTTTTGAGCAATATCA
CCCAAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTT
GGAACAATTTGGAAATTTGTGTCAGGAATTCGATTGTCTCTTTGTGGTTGATTGTGTTAT
AACAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAAAATTGATGTTGCTTTTATGGG
AACACAAAAGGTTCTTAATGCTCCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGC
TTTTGAAAAAATCGTTAAAAGAAAGTCACCAGTAAAAAGCTACAATTATGATGCAGTAAA
TCTCAGTAAATATTGGAAATCGGGCGATGAACCAAGAGTTTATCATCATACAGTTTGCTC
AACATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGA
AGCTTCTTGGAAAAATCATCAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAA
TGGTTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTGTAAA
AGTTCCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATATAATGT
TGAAATCAGTGGTGGAATGGGACAAACTAAAGGAAAAATTTTAAGGTAATGAACCAAAAA
AATTTCAAATTTTATGACAGATAAAACAAGAATAATTTTTTAAATTTAAATTTTAGAGTT
GGACTTATGGGAATAAATTGTAAAGAAATCGTTGCAGAATGCGTTGCAAAAATTCTTATT
GAAGCAACGAGAAAGTTGAATGAAGAATAA
>g17482.t29 Gene=g17482 Length=303
MTLKLVSSHYLLQTNNSYTFCISGSAIECALMNVIEDNDVIVIGCCGQWGTRAENIAKRL
NADVKVINKEPGEQIEVEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFDC
LFVVDCVITVGCTPVYVDKWKIDVAFMGTQKVLNAPPGISPITFSARAFEKIVKRKSPVK
SYNYDAVNLSKYWKSGDEPRVYHHTVCSTLLYGLREAIAIFIENGGLEASWKNHQNVAKH
FYTLLEKNGLELFITDPKNRVPSVTAVKVPENIDANEIIKHSMNEYNVEISGGMGQTKGK
ILR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g17482.t29 | Gene3D | G3DSA:3.40.640.10 | - | 9 | 224 | 7.1E-107 |
| 6 | g17482.t29 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 226 | 303 | 7.1E-107 |
| 2 | g17482.t29 | PANTHER | PTHR21152 | AMINOTRANSFERASE CLASS V | 9 | 303 | 1.7E-85 |
| 3 | g17482.t29 | PANTHER | PTHR21152:SF22 | SERINE–PYRUVATE AMINOTRANSFERASE | 9 | 303 | 1.7E-85 |
| 1 | g17482.t29 | Pfam | PF00266 | Aminotransferase class-V | 23 | 294 | 1.5E-38 |
| 5 | g17482.t29 | ProSitePatterns | PS00595 | Aminotransferases class-V pyridoxal-phosphate attachment site. | 142 | 162 | - |
| 4 | g17482.t29 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 10 | 303 | 7.08E-66 |
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