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.t42 TSS g17482.t42 13657411 13657411
chr_4 g17482 g17482.t42 isoform g17482.t42 13657464 13659248
chr_4 g17482 g17482.t42 exon g17482.t42.exon1 13657464 13657527
chr_4 g17482 g17482.t42 exon g17482.t42.exon2 13657853 13657971
chr_4 g17482 g17482.t42 exon g17482.t42.exon3 13658022 13658071
chr_4 g17482 g17482.t42 exon g17482.t42.exon4 13658133 13658509
chr_4 g17482 g17482.t42 cds g17482.t42.CDS1 13658463 13658509
chr_4 g17482 g17482.t42 exon g17482.t42.exon5 13658682 13659083
chr_4 g17482 g17482.t42 cds g17482.t42.CDS2 13658682 13659083
chr_4 g17482 g17482.t42 exon g17482.t42.exon6 13659155 13659248
chr_4 g17482 g17482.t42 cds g17482.t42.CDS3 13659155 13659248
chr_4 g17482 g17482.t42 TTS g17482.t42 13659279 13659279

Sequences

>g17482.t42 Gene=g17482 Length=1106
ATGGATGTGCCAATTCCAGAAATTTTAAAGAAACCAATGGAAGTTGATGAAAAAATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGAATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTGAAACATTCAAAATCATGGATGACATTAAAATTGGTGTCAAG
TCATTATCTACTTCAGACGAATAATTCTTACACATTTTGTATATCTGGATCAGCTATCGA
ATGTGCTCTTATGAATGTGATTGAAGACAATGACGTTATTGTTATCGGATGTTGTGGCCA
ATGGGGTACGCGTGCAGAAAACATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAA
TAAAGAACCAGGAGAGCAAATTGAAGTAGAAGAAACCCGAATATTTTTTGAGCAATATCA
CCCAAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTT
GGAACAATTTGGAAATTTGTGTCAGGAATTCGATTGTCTCTTTGTGGTTGATTGTGTTAT
AACAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAAAATTGATGTTGCTTTTATGGG
AACACAAAAGTGAAAAAATCGTTAAAAGAAAGTCACCAGTAAAAAGCTACAATTATGATG
CAGTAAATCTCAGTAAATATTGGAAATCGGGCGATGAACCAAGAGTTTATCATCATACAG
TTTGCTCAACATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTG
GTTTAGAAGCTTCTTGGAAAAATCATCAAAATGTTGCCAAACATTTTTATACTCTGTTGG
AAAAGAATGGTTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAG
CTGTAAAAGTTCCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAAT
ATAATGTTGAAATCAGTGGTGGAATGGGACAAACTAAAGGAAAAATTTTAAGAGTTGGAC
TTATGGGAATAAATTGTAAAGAAATCGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAG
CAACGAGAAAGTTGAATGAAGAATAA

>g17482.t42 Gene=g17482 Length=180
MLINGKLMLLLWEHKSEKIVKRKSPVKSYNYDAVNLSKYWKSGDEPRVYHHTVCSTLLYG
LREAIAIFIENGGLEASWKNHQNVAKHFYTLLEKNGLELFITDPKNRVPSVTAVKVPENI
DANEIIKHSMNEYNVEISGGMGQTKGKILRVGLMGINCKEIVAECVAKILIEATRKLNEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g17482.t42 Coils Coil Coil 176 180 -
6 g17482.t42 Gene3D G3DSA:3.40.640.10 - 13 71 2.7E-46
5 g17482.t42 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 73 169 2.7E-46
2 g17482.t42 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 13 173 9.0E-38
3 g17482.t42 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 13 173 9.0E-38
1 g17482.t42 Pfam PF00266 Aminotransferase class-V 30 162 1.1E-11
4 g17482.t42 SUPERFAMILY SSF53383 PLP-dependent transferases 17 169 2.44E-27

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