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.t93 TSS g17482.t93 13657411 13657411
chr_4 g17482 g17482.t93 isoform g17482.t93 13657855 13659248
chr_4 g17482 g17482.t93 exon g17482.t93.exon1 13657855 13657967
chr_4 g17482 g17482.t93 exon g17482.t93.exon2 13658022 13658509
chr_4 g17482 g17482.t93 cds g17482.t93.CDS1 13658150 13658509
chr_4 g17482 g17482.t93 exon g17482.t93.exon3 13658572 13659083
chr_4 g17482 g17482.t93 cds g17482.t93.CDS2 13658572 13658628
chr_4 g17482 g17482.t93 exon g17482.t93.exon4 13659155 13659248
chr_4 g17482 g17482.t93 TTS g17482.t93 13659279 13659279

Sequences

>g17482.t93 Gene=g17482 Length=1207
GCTGGACCTTCAAATTATCATCCAAGAATAAGACATGCAATGTCATTACCTGTTCTTGGT
CATCTTCATCCTGAAACATTCAAAATCATGGATGACATTAAAATTGGTGTCAATTATCTA
CTTCAGACGAATAATTCTTACACATTTTGTATATCTGGATCAGGTCAAGCGTCGATGTTT
ATTTATTTTTAACTGCTGTTTTAATAAATAATTTAATTTTTCAGCTATCGAATGTGCTCT
TATGAATGTGATTGAAGACAATGACGTTATTGTTATCGGATGTTGTGGCCAATGGGGTAC
GCGTGCAGAAAACATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATAAAGAACC
AGGAGAGCAAATTGAAGTAGAAGAAACCCGAATATTTTTTGAGCAATATCACCCAAAAGT
TTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAACAATT
TGGAAATTTGTGTCAGGAATTCGATTGTCTCTTTGTGGTTGATTGTGTTATAACAGTTGG
ATGCACTCCAGTTTATGTTGATAAATGGAAAATTGATGTTGCTTTTATGGGAACACAAAA
GGTTCTTAATGCTCCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCTTTGTGAGA
TTTTTTTGAATTTTTAAAAAATCTAAAAAAATTTAAAATTTTTGTTTTTAGTGAAAAAAT
CGTTAAAAGAAAGTCACCAGTAAAAAGCTACAATTATGATGCAGTAAATCTCAGTAAATA
TTGGAAATCGGGCGATGAACCAAGAGTTTATCATCATACAGTTTGCTCAACATTACTCTA
CGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAAGCTTCTTGGAA
AAATCATCAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAATGGTTTGGAATT
ATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTGTAAAAGTTCCTGAGAA
TATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATATAATGTTGAAATCAGTGG
TGGAATGGGACAAACTAAAGGAAAAATTTTAAGAGTTGGACTTATGGGAATAAATTGTAA
AGAAATCGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCAACGAGAAAGTTGAATGA
AGAATAA

>g17482.t93 Gene=g17482 Length=138
MNVIEDNDVIVIGCCGQWGTRAENIAKRLNADVKVINKEPGEQIEVEETRIFFEQYHPKV
FFLTHGESSTGMLQQNLEQFGNLCQEFDCLFVVDCVITVGCTPVYVDKWKIDVAFMGTQK
VLNAPPGISPITFSARAL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g17482.t93 Gene3D G3DSA:3.40.640.10 - 1 137 1.9E-51
2 g17482.t93 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 2 137 1.2E-36
3 g17482.t93 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 2 137 1.2E-36
1 g17482.t93 Pfam PF00266 Aminotransferase class-V 4 136 1.7E-21
5 g17482.t93 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 111 131 -
4 g17482.t93 SUPERFAMILY SSF53383 PLP-dependent transferases 2 137 2.93E-34

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