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 g17483 g17483.t12 TSS g17483.t12 13659535 13659535
chr_4 g17483 g17483.t12 isoform g17483.t12 13659588 13661196
chr_4 g17483 g17483.t12 exon g17483.t12.exon1 13659588 13659651
chr_4 g17483 g17483.t12 exon g17483.t12.exon2 13659877 13659995
chr_4 g17483 g17483.t12 exon g17483.t12.exon3 13660046 13660095
chr_4 g17483 g17483.t12 exon g17483.t12.exon4 13660208 13660591
chr_4 g17483 g17483.t12 exon g17483.t12.exon5 13660656 13660708
chr_4 g17483 g17483.t12 cds g17483.t12.CDS1 13660663 13660708
chr_4 g17483 g17483.t12 exon g17483.t12.exon6 13660847 13661196
chr_4 g17483 g17483.t12 cds g17483.t12.CDS2 13660847 13661196
chr_4 g17483 g17483.t12 TTS g17483.t12 13661511 13661511

Sequences

>g17483.t12 Gene=g17483 Length=1020
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAG
TCATTATCTACTTCAGACAAATAATTCTTACACATTTTGTATCTCTGGACCAGTTTTTAG
CTATCGAATGTGCTTTTGTAAATTTGGTTGAAGACAACGATATAGTTGTTATTGGAAGTA
GTGGCTATTGGGGAATAAGAGCAGAAGATATTGCAAAACGATTAAATGCTGATGTAAAAG
TCATCAATAAAGAATTAGGAGAGCAAATTGAATTAGAAGAAACACGAATATTTTTTGAGC
AATATCATCCAAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAAC
AAAATTTGGAACAATTTGGAAATTTATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATT
GCGTTATAACAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAATATTGATGTTGCTT
TTATGGGAACACAAAAGGTTCTTAATGCACCACCAGGAATTTCTCCGATTACATTCAGTG
CACGAGCTTTTAAACCTTGGTGAATATTGGAATTCTGGAAACCGTCCAAGAATTTATCAT
CATACAGTTTGTTCAACATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAG
AATGGTGGTTTAGAAGCTTCTTGGAAAAATCATGAAAATGTTGCCAAACATTTTTATACT
CTGTTGGAAAAGAATGGTTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCA
GTTACAGCTATAAAAGTACCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATG
AATGAATACAATGTTGAAATTAGTGGTGGTATAGGACCAATGTTGGGGGTAGTTTTGAGG

>g17483.t12 Gene=g17483 Length=132
MHHQEFLRLHSVHELLNLGEYWNSGNRPRIYHHTVCSTLLYGLREAIAIFIENGGLEASW
KNHENVAKHFYTLLEKNGLELFITDPKNRVPSVTAIKVPENIDANEIIKHSMNEYNVEIS
GGIGPMLGVVLR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g17483.t12 Gene3D G3DSA:3.40.640.10 - 15 53 0
5 g17483.t12 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 55 132 0
2 g17483.t12 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 15 132 0
3 g17483.t12 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 15 132 0
1 g17483.t12 Pfam PF00266 Aminotransferase class-V 18 122 0
4 g17483.t12 SUPERFAMILY SSF53383 PLP-dependent transferases 13 132 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. There were no conditions that were differentially expressed