Gene loci information

Transcript annotation

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

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.t11 TSS g17482.t11 13657411 13657411
chr_4 g17482 g17482.t11 isoform g17482.t11 13657464 13658870
chr_4 g17482 g17482.t11 exon g17482.t11.exon1 13657464 13657527
chr_4 g17482 g17482.t11 cds g17482.t11.CDS1 13657464 13657527
chr_4 g17482 g17482.t11 exon g17482.t11.exon2 13657853 13657967
chr_4 g17482 g17482.t11 cds g17482.t11.CDS2 13657853 13657967
chr_4 g17482 g17482.t11 exon g17482.t11.exon3 13658022 13658071
chr_4 g17482 g17482.t11 cds g17482.t11.CDS3 13658022 13658071
chr_4 g17482 g17482.t11 exon g17482.t11.exon4 13658133 13658485
chr_4 g17482 g17482.t11 cds g17482.t11.CDS4 13658133 13658485
chr_4 g17482 g17482.t11 exon g17482.t11.exon5 13658682 13658870
chr_4 g17482 g17482.t11 cds g17482.t11.CDS5 13658682 13658684
chr_4 g17482 g17482.t11 TTS g17482.t11 13659279 13659279

Sequences

>g17482.t11 Gene=g17482 Length=771
ATGGATGTGCCAATTCCAGAAATTTTAAAGAAACCAATGGAAGTTGATGAAAAAATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGAATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTGAAACATTCAAAATCATGGATGACATTAAAATTGGTGTCAAT
TATCTACTTCAGACGAATAATTCTTACACATTTTGTATATCTGGATCAGCTATCGAATGT
GCTCTTATGAATGTGATTGAAGACAATGACGTTATTGTTATCGGATGTTGTGGCCAATGG
GGTACGCGTGCAGAAAACATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATAAA
GAACCAGGAGAGCAAATTGAAGTAGAAGAAACCCGAATATTTTTTGAGCAATATCACCCA
AAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAA
CAATTTGGAAATTTGTGTCAGGAATTCGATTGTCTCTTTGTGGTTGATTGTGTTATAACA
GTTGGATGCACTCCAGTTTATGTTGATAAATGGAAAATTGATTGAAAAAATCGTTAAAAG
AAAGTCACCAGTAAAAAGCTACAATTATGATGCAGTAAATCTCAGTAAATATTGGAAATC
GGGCGATGAACCAAGAGTTTATCATCATACAGTTTGCTCAACATTACTCTACGGTTTGCG
AGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAAGCTTCTTGGAA

>g17482.t11 Gene=g17482 Length=194
MDVPIPEILKKPMEVDEKIMTGAGPSNYHPRIRHAMSLPVLGHLHPETFKIMDDIKIGVN
YLLQTNNSYTFCISGSAIECALMNVIEDNDVIVIGCCGQWGTRAENIAKRLNADVKVINK
EPGEQIEVEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFDCLFVVDCVIT
VGCTPVYVDKWKID

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g17482.t11 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 15 28 0
6 g17482.t11 Gene3D G3DSA:3.40.640.10 - 29 194 0
2 g17482.t11 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 2 194 0
3 g17482.t11 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 2 194 0
1 g17482.t11 Pfam PF00266 Aminotransferase class-V 41 194 0
4 g17482.t11 SUPERFAMILY SSF53383 PLP-dependent transferases 19 194 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.

Raw TPM values