Gene loci information

Transcript annotation

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

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.t58 TSS g17483.t58 13659535 13659535
chr_4 g17483 g17483.t58 isoform g17483.t58 13659588 13661512
chr_4 g17483 g17483.t58 exon g17483.t58.exon1 13659588 13659651
chr_4 g17483 g17483.t58 exon g17483.t58.exon2 13659877 13659991
chr_4 g17483 g17483.t58 cds g17483.t58.CDS1 13659970 13659991
chr_4 g17483 g17483.t58 exon g17483.t58.exon3 13660046 13660095
chr_4 g17483 g17483.t58 cds g17483.t58.CDS2 13660046 13660095
chr_4 g17483 g17483.t58 exon g17483.t58.exon4 13660208 13660327
chr_4 g17483 g17483.t58 cds g17483.t58.CDS3 13660208 13660327
chr_4 g17483 g17483.t58 exon g17483.t58.exon5 13660394 13660591
chr_4 g17483 g17483.t58 cds g17483.t58.CDS4 13660394 13660591
chr_4 g17483 g17483.t58 exon g17483.t58.exon6 13660656 13660708
chr_4 g17483 g17483.t58 cds g17483.t58.CDS5 13660656 13660708
chr_4 g17483 g17483.t58 exon g17483.t58.exon7 13660794 13661195
chr_4 g17483 g17483.t58 cds g17483.t58.CDS6 13660794 13661195
chr_4 g17483 g17483.t58 exon g17483.t58.exon8 13661253 13661512
chr_4 g17483 g17483.t58 cds g17483.t58.CDS7 13661253 13661346
chr_4 g17483 g17483.t58 TTS g17483.t58 13661511 13661511

Sequences

>g17483.t58 Gene=g17483 Length=1262
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAT
TATCTACTTCAGACAAATAATTCTTACACATTTTGTATCTCTGGACCAGTTTTTAGCTAT
CGAATGTGCTTTTGTAAATTTGGTTGAAGACAACGATATAGTTGTTATTGGAAGTAGTGG
CTATTGGGGAATAAGAGCAGAAGATATTGCAAAACGATTAAATGCTGATCAATATCATCC
AAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGA
ACAATTTGGAAATTTATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGTTATAAC
AGTTGGATGCACTCCAGTTTATGTTGATAAATGGAATATTGATGTTGCTTTTATGGGAAC
ACAAAAGGTTCTTAATGCACCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCTTT
GGATAAAATTGCAAAGAGAAAGACACCAGTAAAAAGCTATAATCTTGATGCAGTAAACCT
TGGTGAATATTGGAATTCTGGAAACCGTCCAAGAATTTATCATCATACAGTTTGTTCAAC
ATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAAGC
TTCTTGGAAAAATCATGAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAATGG
TTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTATAAAAGT
ACCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATACAATGTTGA
AATTAGTGGTGGTATAGGACCAATGTTGGGGGTAGTTTTGAGAGTTGGACTAATGGGAAT
AAACTGTAATGAAAAAGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCTATAAAAAA
AATGAAAGAAGAATAAAAATATTTATTGCTTGCTTGATTTTATTTGTACGATAAGTTCTT
TATAACAGAATTAATTTAAAAGTCAGAATTAATTTATAAAATGATTAACATTAATAATGG
TAAATTGACACACATGTTTTAAAAATTAATCAACAGTTAATAAACACATTTTTACAAATT
GA

>g17483.t58 Gene=g17483 Length=312
MTLKLVSIIYFRQIILTHFVSLDQFLAIECAFVNLVEDNDIVVIGSSGYWGIRAEDIAKR
LNADQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFNCLFVVDCVITVGCTPVYVDKWN
IDVAFMGTQKVLNAPPGISPITFSARALDKIAKRKTPVKSYNLDAVNLGEYWNSGNRPRI
YHHTVCSTLLYGLREAIAIFIENGGLEASWKNHENVAKHFYTLLEKNGLELFITDPKNRV
PSVTAIKVPENIDANEIIKHSMNEYNVEISGGIGPMLGVVLRVGLMGINCNEKVAECVAK
ILIEAIKKMKEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g17483.t58 Gene3D G3DSA:3.40.640.10 - 27 64 1.8E-6
9 g17483.t58 Gene3D G3DSA:3.40.640.10 - 66 203 1.1E-87
8 g17483.t58 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 205 302 1.1E-87
3 g17483.t58 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 15 63 5.2E-85
5 g17483.t58 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 15 63 5.2E-85
2 g17483.t58 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 64 308 5.2E-85
4 g17483.t58 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 64 308 5.2E-85
1 g17483.t58 Pfam PF00266 Aminotransferase class-V 40 294 6.1E-31
7 g17483.t58 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 121 141 -
6 g17483.t58 SUPERFAMILY SSF53383 PLP-dependent transferases 26 309 4.99E-64

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