Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Serine–pyruvate aminotransferase.

Parent gene

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.t96 TSS g17482.t96 13657411 13657411
chr_4 g17482 g17482.t96 isoform g17482.t96 13657866 13659248
chr_4 g17482 g17482.t96 exon g17482.t96.exon1 13657866 13657971
chr_4 g17482 g17482.t96 exon g17482.t96.exon2 13658022 13658071
chr_4 g17482 g17482.t96 exon g17482.t96.exon3 13658133 13658509
chr_4 g17482 g17482.t96 cds g17482.t96.CDS1 13658463 13658509
chr_4 g17482 g17482.t96 exon g17482.t96.exon4 13658572 13658624
chr_4 g17482 g17482.t96 cds g17482.t96.CDS2 13658572 13658624
chr_4 g17482 g17482.t96 exon g17482.t96.exon5 13658735 13659083
chr_4 g17482 g17482.t96 cds g17482.t96.CDS3 13658735 13659083
chr_4 g17482 g17482.t96 exon g17482.t96.exon6 13659155 13659248
chr_4 g17482 g17482.t96 cds g17482.t96.CDS4 13659155 13659248
chr_4 g17482 g17482.t96 TTS g17482.t96 13659279 13659279

Sequences

>g17482.t96 Gene=g17482 Length=1029
AAATTATCATCCAAGAATAAGACATGCAATGTCATTACCTGTTCTTGGTCATCTTCATCC
TGAAACATTCAAAATCATGGATGACATTAAAATTGGTGTCAAGTCATTATCTACTTCAGA
CGAATAATTCTTACACATTTTGTATATCTGGATCAGCTATCGAATGTGCTCTTATGAATG
TGATTGAAGACAATGACGTTATTGTTATCGGATGTTGTGGCCAATGGGGTACGCGTGCAG
AAAACATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATAAAGAACCAGGAGAGC
AAATTGAAGTAGAAGAAACCCGAATATTTTTTGAGCAATATCACCCAAAAGTTTTCTTTT
TGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAACAATTTGGAAATT
TGTGTCAGGAATTCGATTGTCTCTTTGTGGTTGATTGTGTTATAACAGTTGGATGCACTC
CAGTTTATGTTGATAAATGGAAAATTGATGTTGCTTTTATGGGAACACAAAAGGTTCTTA
ATGCTCCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCTTTTAAATCTCAGTAAA
TATTGGAAATCGGGCGATGAACCAAGAGTTTATCATCATACAGTTTGCTCAACATTACTC
TACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAAGCTTCTTGG
AAAAATCATCAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAATGGTTTGGAA
TTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTGTAAAAGTTCCTGAG
AATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATATAATGTTGAAATCAGT
GGTGGAATGGGACAAACTAAAGGAAAAATTTTAAGAGTTGGACTTATGGGAATAAATTGT
AAAGAAATCGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCAACGAGAAAGTTGAAT
GAAGAATAA

>g17482.t96 Gene=g17482 Length=180
MLINGKLMLLLWEHKRFLMLHQEFLRLHSVHELLNLSKYWKSGDEPRVYHHTVCSTLLYG
LREAIAIFIENGGLEASWKNHQNVAKHFYTLLEKNGLELFITDPKNRVPSVTAVKVPENI
DANEIIKHSMNEYNVEISGGMGQTKGKILRVGLMGINCKEIVAECVAKILIEATRKLNEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g17482.t96 Gene3D G3DSA:3.40.640.10 - 33 71 0
5 g17482.t96 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 73 169 0
2 g17482.t96 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 33 173 0
3 g17482.t96 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 33 173 0
1 g17482.t96 Pfam PF00266 Aminotransferase class-V 32 162 0
4 g17482.t96 SUPERFAMILY SSF53383 PLP-dependent transferases 25 169 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