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 g17483 g17483.t79 TSS g17483.t79 13659535 13659535
chr_4 g17483 g17483.t79 isoform g17483.t79 13660423 13661512
chr_4 g17483 g17483.t79 exon g17483.t79.exon1 13660423 13660582
chr_4 g17483 g17483.t79 cds g17483.t79.CDS1 13660445 13660582
chr_4 g17483 g17483.t79 exon g17483.t79.exon2 13660656 13660708
chr_4 g17483 g17483.t79 cds g17483.t79.CDS2 13660656 13660708
chr_4 g17483 g17483.t79 exon g17483.t79.exon3 13660794 13661195
chr_4 g17483 g17483.t79 cds g17483.t79.CDS3 13660794 13661195
chr_4 g17483 g17483.t79 exon g17483.t79.exon4 13661253 13661512
chr_4 g17483 g17483.t79 cds g17483.t79.CDS4 13661253 13661346
chr_4 g17483 g17483.t79 TTS g17483.t79 13661511 13661511

Sequences

>g17483.t79 Gene=g17483 Length=875
TCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAACAATTTGGAAATTTATG
TCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGTTATAACAGTTGGATGCACTCCAGT
TTATGTTGATAAATGGAATATTGATGTTGCTTTTATGGGAGTTCTTAATGCACCACCAGG
AATTTCTCCGATTACATTCAGTGCACGAGCTTTGGATAAAATTGCAAAGAGAAAGACACC
AGTAAAAAGCTATAATCTTGATGCAGTAAACCTTGGTGAATATTGGAATTCTGGAAACCG
TCCAAGAATTTATCATCATACAGTTTGTTCAACATTACTCTACGGTTTGCGAGAGGCAAT
TGCAATTTTCATTGAGAATGGTGGTTTAGAAGCTTCTTGGAAAAATCATGAAAATGTTGC
CAAACATTTTTATACTCTGTTGGAAAAGAATGGTTTGGAATTATTCATTACTGATCCTAA
AAATCGTGTTCCATCAGTTACAGCTATAAAAGTACCTGAGAATATCGATGCAAATGAAAT
TATAAAACATTCAATGAATGAATACAATGTTGAAATTAGTGGTGGTATAGGACCAATGTT
GGGGGTAGTTTTGAGAGTTGGACTAATGGGAATAAACTGTAATGAAAAAGTTGCAGAATG
CGTTGCAAAAATTCTTATTGAAGCTATAAAAAAAATGAAAGAAGAATAAAAATATTTATT
GCTTGCTTGATTTTATTTGTACGATAAGTTCTTTATAACAGAATTAATTTAAAAGTCAGA
ATTAATTTATAAAATGATTAACATTAATAATGGTAAATTGACACACATGTTTTAAAAATT
AATCAACAGTTAATAAACACATTTTTACAAATTGA

>g17483.t79 Gene=g17483 Length=228
MLQQNLEQFGNLCQEFNCLFVVDCVITVGCTPVYVDKWNIDVAFMGVLNAPPGISPITFS
ARALDKIAKRKTPVKSYNLDAVNLGEYWNSGNRPRIYHHTVCSTLLYGLREAIAIFIENG
GLEASWKNHENVAKHFYTLLEKNGLELFITDPKNRVPSVTAIKVPENIDANEIIKHSMNE
YNVEISGGIGPMLGVVLRVGLMGINCNEKVAECVAKILIEAIKKMKEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g17483.t79 Coils Coil Coil 218 228 -
6 g17483.t79 Gene3D G3DSA:3.40.640.10 - 4 119 2.5E-73
5 g17483.t79 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 121 218 2.5E-73
2 g17483.t79 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 6 224 6.0E-64
3 g17483.t79 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 6 224 6.0E-64
1 g17483.t79 Pfam PF00266 Aminotransferase class-V 4 210 9.2E-22
4 g17483.t79 SUPERFAMILY SSF53383 PLP-dependent transferases 4 225 1.6E-47

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