Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t6 TSS g17483.t6 13659535 13659535
chr_4 g17483 g17483.t6 isoform g17483.t6 13659588 13660708
chr_4 g17483 g17483.t6 exon g17483.t6.exon1 13659588 13659651
chr_4 g17483 g17483.t6 cds g17483.t6.CDS1 13659588 13659651
chr_4 g17483 g17483.t6 exon g17483.t6.exon2 13659877 13659991
chr_4 g17483 g17483.t6 cds g17483.t6.CDS2 13659877 13659991
chr_4 g17483 g17483.t6 exon g17483.t6.exon3 13660046 13660095
chr_4 g17483 g17483.t6 cds g17483.t6.CDS3 13660046 13660095
chr_4 g17483 g17483.t6 exon g17483.t6.exon4 13660215 13660591
chr_4 g17483 g17483.t6 cds g17483.t6.CDS4 13660215 13660591
chr_4 g17483 g17483.t6 exon g17483.t6.exon5 13660656 13660708
chr_4 g17483 g17483.t6 cds g17483.t6.CDS5 13660656 13660706
chr_4 g17483 g17483.t6 TTS g17483.t6 13661511 13661511

Sequences

>g17483.t6 Gene=g17483 Length=659
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAT
TATCTACTTCAGACAAATAATTCTTACACATTTTGTATCTCTGGACCAGCTATCGAATGT
GCTTTTGTAAATTTGGTTGAAGACAACGATATAGTTGTTATTGGAAGTAGTGGCTATTGG
GGAATAAGAGCAGAAGATATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATAAA
GAATTAGGAGAGCAAATTGAATTAGAAGAAACACGAATATTTTTTGAGCAATATCATCCA
AAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAA
CAATTTGGAAATTTATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGTTATAACA
GTTGGATGCACTCCAGTTTATGTTGATAAATGGAATATTGATGTTGCTTTTATGGGAACA
CAAAAGGTTCTTAATGCACCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCTTT

>g17483.t6 Gene=g17483 Length=219
MDVPIPEILQTPMEVDEMIMTGAGPSNYHPRIRHAMSLPVLGHLHPKTFKIMDDIKIGVN
YLLQTNNSYTFCISGPAIECAFVNLVEDNDIVVIGSSGYWGIRAEDIAKRLNADVKVINK
ELGEQIELEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFNCLFVVDCVIT
VGCTPVYVDKWNIDVAFMGTQKVLNAPPGISPITFSARA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g17483.t6 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 16 28 2.7E-76
7 g17483.t6 Gene3D G3DSA:3.40.640.10 - 29 219 2.7E-76
2 g17483.t6 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 2 219 3.0E-63
3 g17483.t6 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 2 219 3.0E-63
1 g17483.t6 Pfam PF00266 Aminotransferase class-V 41 216 1.6E-24
5 g17483.t6 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 193 213 -
4 g17483.t6 SUPERFAMILY SSF53383 PLP-dependent transferases 18 219 1.16E-46

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