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.t44 TSS g17483.t44 13659535 13659535
chr_4 g17483 g17483.t44 isoform g17483.t44 13659588 13661346
chr_4 g17483 g17483.t44 exon g17483.t44.exon1 13659588 13659651
chr_4 g17483 g17483.t44 exon g17483.t44.exon2 13659877 13659995
chr_4 g17483 g17483.t44 exon g17483.t44.exon3 13660123 13660626
chr_4 g17483 g17483.t44 cds g17483.t44.CDS1 13660445 13660626
chr_4 g17483 g17483.t44 exon g17483.t44.exon4 13660794 13661195
chr_4 g17483 g17483.t44 cds g17483.t44.CDS2 13660794 13661195
chr_4 g17483 g17483.t44 exon g17483.t44.exon5 13661253 13661346
chr_4 g17483 g17483.t44 cds g17483.t44.CDS3 13661253 13661346
chr_4 g17483 g17483.t44 TTS g17483.t44 13661511 13661511

Sequences

>g17483.t44 Gene=g17483 Length=1183
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAG
TCAAAAATCATTTAAATATTTTAAATATTTCAGGTCATGCTGGTGATTTATTTTCTAAAC
TTTTATTAACAAAAATGAAAAATTTTAGTTTTTAGCTATCGAATGTGCTTTTGTAAATTT
GGTTGAAGACAACGATATAGTTGTTATTGGAAGTAGTGGCTATTGGGGAATAAGAGCAGA
AGATATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATAAAGAATTAGGAGAGCA
AATTGAATTAGAAGAAACACGAATATTTTTTGAGCAATATCATCCAAAAGTTTTCTTTTT
GACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAACAATTTGGAAATTT
ATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGTTATAACAGTTGGATGCACTCC
AGTTTATGTTGATAAATGGAATATTGATGTTGCTTTTATGGGAACACAAAAGGTTTACAC
AAAAGCTAACTTTTTTTTAATGATCATGGATAAAATTGCAAAGAGAAAGACACCAGTAAA
AAGCTATAATCTTGATGCAGTAAACCTTGGTGAATATTGGAATTCTGGAAACCGTCCAAG
AATTTATCATCATACAGTTTGTTCAACATTACTCTACGGTTTGCGAGAGGCAATTGCAAT
TTTCATTGAGAATGGTGGTTTAGAAGCTTCTTGGAAAAATCATGAAAATGTTGCCAAACA
TTTTTATACTCTGTTGGAAAAGAATGGTTTGGAATTATTCATTACTGATCCTAAAAATCG
TGTTCCATCAGTTACAGCTATAAAAGTACCTGAGAATATCGATGCAAATGAAATTATAAA
ACATTCAATGAATGAATACAATGTTGAAATTAGTGGTGGTATAGGACCAATGTTGGGGGT
AGTTTTGAGAGTTGGACTAATGGGAATAAACTGTAATGAAAAAGTTGCAGAATGCGTTGC
AAAAATTCTTATTGAAGCTATAAAAAAAATGAAAGAAGAATAA

>g17483.t44 Gene=g17483 Length=225
MLQQNLEQFGNLCQEFNCLFVVDCVITVGCTPVYVDKWNIDVAFMGTQKVYTKANFFLMI
MDKIAKRKTPVKSYNLDAVNLGEYWNSGNRPRIYHHTVCSTLLYGLREAIAIFIENGGLE
ASWKNHENVAKHFYTLLEKNGLELFITDPKNRVPSVTAIKVPENIDANEIIKHSMNEYNV
EISGGIGPMLGVVLRVGLMGINCNEKVAECVAKILIEAIKKMKEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g17483.t44 Coils Coil Coil 212 225 -
6 g17483.t44 Gene3D G3DSA:3.40.640.10 - 4 116 5.9E-65
5 g17483.t44 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 118 215 5.9E-65
2 g17483.t44 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 6 221 2.8E-55
3 g17483.t44 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 6 221 2.8E-55
1 g17483.t44 Pfam PF00266 Aminotransferase class-V 4 207 1.4E-20
4 g17483.t44 SUPERFAMILY SSF53383 PLP-dependent transferases 4 222 1.51E-42

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