Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t101 TSS g17482.t101 13657411 13657411
chr_4 g17482 g17482.t101 isoform g17482.t101 13657988 13659248
chr_4 g17482 g17482.t101 exon g17482.t101.exon1 13657988 13658071
chr_4 g17482 g17482.t101 exon g17482.t101.exon2 13658133 13658509
chr_4 g17482 g17482.t101 cds g17482.t101.CDS1 13658150 13658509
chr_4 g17482 g17482.t101 exon g17482.t101.exon3 13658572 13658624
chr_4 g17482 g17482.t101 cds g17482.t101.CDS2 13658572 13658624
chr_4 g17482 g17482.t101 exon g17482.t101.exon4 13658682 13659083
chr_4 g17482 g17482.t101 cds g17482.t101.CDS3 13658682 13659083
chr_4 g17482 g17482.t101 exon g17482.t101.exon5 13659155 13659248
chr_4 g17482 g17482.t101 cds g17482.t101.CDS4 13659155 13659248
chr_4 g17482 g17482.t101 TTS g17482.t101 13659279 13659279

Sequences

>g17482.t101 Gene=g17482 Length=1010
AATGAATTTTAATAATCTTAATTTATTTTTATAGTTATCTACTTCAGACGAATAATTCTT
ACACATTTTGTATATCTGGATCAGCTATCGAATGTGCTCTTATGAATGTGATTGAAGACA
ATGACGTTATTGTTATCGGATGTTGTGGCCAATGGGGTACGCGTGCAGAAAACATTGCAA
AACGATTAAATGCTGATGTAAAAGTCATCAATAAAGAACCAGGAGAGCAAATTGAAGTAG
AAGAAACCCGAATATTTTTTGAGCAATATCACCCAAAAGTTTTCTTTTTGACTCATGGTG
AATCAAGCACAGGAATGTTGCAACAAAATTTGGAACAATTTGGAAATTTGTGTCAGGAAT
TCGATTGTCTCTTTGTGGTTGATTGTGTTATAACAGTTGGATGCACTCCAGTTTATGTTG
ATAAATGGAAAATTGATGTTGCTTTTATGGGAACACAAAAGGTTCTTAATGCTCCACCAG
GAATTTCTCCGATTACATTCAGTGCACGAGCTTTTGAAAAAATCGTTAAAAGAAAGTCAC
CAGTAAAAAGCTACAATTATGATGCAGTAAATCTCAGTAAATATTGGAAATCGGGCGATG
AACCAAGAGTTTATCATCATACAGTTTGCTCAACATTACTCTACGGTTTGCGAGAGGCAA
TTGCAATTTTCATTGAGAATGGTGGTTTAGAAGCTTCTTGGAAAAATCATCAAAATGTTG
CCAAACATTTTTATACTCTGTTGGAAAAGAATGGTTTGGAATTATTCATTACTGATCCTA
AAAATCGTGTTCCATCAGTTACAGCTGTAAAAGTTCCTGAGAATATCGATGCAAATGAAA
TTATAAAACATTCAATGAATGAATATAATGTTGAAATCAGTGGTGGAATGGGACAAACTA
AAGGAAAAATTTTAAGAGTTGGACTTATGGGAATAAATTGTAAAGAAATCGTTGCAGAAT
GCGTTGCAAAAATTCTTATTGAAGCAACGAGAAAGTTGAATGAAGAATAA

>g17482.t101 Gene=g17482 Length=302
MNVIEDNDVIVIGCCGQWGTRAENIAKRLNADVKVINKEPGEQIEVEETRIFFEQYHPKV
FFLTHGESSTGMLQQNLEQFGNLCQEFDCLFVVDCVITVGCTPVYVDKWKIDVAFMGTQK
VLNAPPGISPITFSARAFEKIVKRKSPVKSYNYDAVNLSKYWKSGDEPRVYHHTVCSTLL
YGLREAIAIFIENGGLEASWKNHQNVAKHFYTLLEKNGLELFITDPKNRVPSVTAVKVPE
NIDANEIIKHSMNEYNVEISGGMGQTKGKILRVGLMGINCKEIVAECVAKILIEATRKLN
EE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g17482.t101 Gene3D G3DSA:3.40.640.10 - 1 193 1.3E-104
6 g17482.t101 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 195 291 1.3E-104
2 g17482.t101 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 2 294 5.8E-84
3 g17482.t101 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 2 294 5.8E-84
1 g17482.t101 Pfam PF00266 Aminotransferase class-V 4 284 7.1E-38
5 g17482.t101 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 111 131 -
4 g17482.t101 SUPERFAMILY SSF53383 PLP-dependent transferases 1 295 1.32E-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