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.t8 TSS g17483.t8 13659535 13659535
chr_4 g17483 g17483.t8 isoform g17483.t8 13659588 13660988
chr_4 g17483 g17483.t8 exon g17483.t8.exon1 13659588 13659651
chr_4 g17483 g17483.t8 exon g17483.t8.exon2 13659877 13659995
chr_4 g17483 g17483.t8 cds g17483.t8.CDS1 13659970 13659995
chr_4 g17483 g17483.t8 exon g17483.t8.exon3 13660046 13660095
chr_4 g17483 g17483.t8 cds g17483.t8.CDS2 13660046 13660095
chr_4 g17483 g17483.t8 exon g17483.t8.exon4 13660215 13660591
chr_4 g17483 g17483.t8 cds g17483.t8.CDS3 13660215 13660591
chr_4 g17483 g17483.t8 exon g17483.t8.exon5 13660656 13660708
chr_4 g17483 g17483.t8 cds g17483.t8.CDS4 13660656 13660708
chr_4 g17483 g17483.t8 exon g17483.t8.exon6 13660794 13660988
chr_4 g17483 g17483.t8 cds g17483.t8.CDS5 13660794 13660986
chr_4 g17483 g17483.t8 TTS g17483.t8 13661511 13661511

Sequences

>g17483.t8 Gene=g17483 Length=858
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAG
TCATTATCTACTTCAGACAAATAATTCTTACACATTTTGTATCTCTGGACCAGCTATCGA
ATGTGCTTTTGTAAATTTGGTTGAAGACAACGATATAGTTGTTATTGGAAGTAGTGGCTA
TTGGGGAATAAGAGCAGAAGATATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAA
TAAAGAATTAGGAGAGCAAATTGAATTAGAAGAAACACGAATATTTTTTGAGCAATATCA
TCCAAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTT
GGAACAATTTGGAAATTTATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGTTAT
AACAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAATATTGATGTTGCTTTTATGGG
AACACAAAAGGTTCTTAATGCACCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGC
TTTGGATAAAATTGCAAAGAGAAAGACACCAGTAAAAAGCTATAATCTTGATGCAGTAAA
CCTTGGTGAATATTGGAATTCTGGAAACCGTCCAAGAATTTATCATCATACAGTTTGTTC
AACATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGA
AGCTTCTTGGAAAAATCA

>g17483.t8 Gene=g17483 Length=233
MTLKLVSSHYLLQTNNSYTFCISGPAIECAFVNLVEDNDIVVIGSSGYWGIRAEDIAKRL
NADVKVINKELGEQIELEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFNC
LFVVDCVITVGCTPVYVDKWNIDVAFMGTQKVLNAPPGISPITFSARALDKIAKRKTPVK
SYNLDAVNLGEYWNSGNRPRIYHHTVCSTLLYGLREAIAIFIENGGLEASWKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g17483.t8 Gene3D G3DSA:3.40.640.10 - 9 224 3.4E-81
2 g17483.t8 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 9 232 1.1E-61
3 g17483.t8 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 9 232 1.1E-61
1 g17483.t8 Pfam PF00266 Aminotransferase class-V 24 232 1.0E-28
5 g17483.t8 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 142 162 -
4 g17483.t8 SUPERFAMILY SSF53383 PLP-dependent transferases 11 232 2.45E-48

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