Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable phosphoserine 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_3 g158 g158.t6 TSS g158.t6 1437280 1437280
chr_3 g158 g158.t6 isoform g158.t6 1437353 1438693
chr_3 g158 g158.t6 exon g158.t6.exon1 1437353 1438042
chr_3 g158 g158.t6 cds g158.t6.CDS1 1437682 1438042
chr_3 g158 g158.t6 exon g158.t6.exon2 1438109 1438215
chr_3 g158 g158.t6 cds g158.t6.CDS2 1438109 1438215
chr_3 g158 g158.t6 exon g158.t6.exon3 1438327 1438693
chr_3 g158 g158.t6 cds g158.t6.CDS3 1438327 1438353
chr_3 g158 g158.t6 TTS g158.t6 1438738 1438738

Sequences

>g158.t6 Gene=g158 Length=1164
ATGGTTATTAATTTTGCCGCAGGACCAGCAAAGCTTCCAGATGAGGTAGTTTTAATTCAA
TCATATCATTTATCAATAATAATTAAATTAATATTAGGTACTAAAAGAAGTGCAACAAGA
ATTACTTGATTATAATGGAACAGGAATGTCTGTAATGGAAATGTCGCATAGAGGCGCTGT
TTATACAAAAATTCATGAAGACGCGATTAAATCAATTCGAGAGCTATTGTAAGTTGTGAT
AAGCGTGATTCATTGAAGAAAGTTCTTTGACTTTTTCTCTATCTTGTTGTTTACATAGGA
ATGTGCCTGATAATTATAAAGTTTTGCTAATGCAGGGTGGTGGCACTGGTCAATTTTCAG
CTGTTTGTATGAATCTCATTGGAAGAACTGGATCAGCTGACTATATTGTCACTGGCTCAT
GGTCTCTTAAGGCTTATAAAGAAGCTTCAAAATATGGCACAGCTAATCTTGTCTTTCCTA
AACCCGACAAATTTACAACTATTCCGAATCAGAGCGAATGGAAATTGAACCCAAATGCCT
CGTATGTCTATTATTGCGACAATGAAACTGTCGATGGTGTCGAATTCGATTTTATTCCAG
AGACTCATAACATTCCGCTTGTATGTGACATGTCATCCAATTTTATGTCACGAACATTTG
ATGTGTCAAAATTCGGTTTAATTTTTGCAGGTGCCCAGAAAAATATTGGACCTAGTGGTG
TCACTGTTGTAATTATTAGAGATGACTTGATTGGTCATGCTTTAAAAATCACTCCATCTG
TCTTTGATTACGCTGATAATCTATTTTTGCTCACGTGTATTTGAATGGATTAAACGAAAT
GGTGGTATTGAAGGCATGAATAAGCTGGCAATGAAAAAATCTTCGTTGATCTATAACACT
ATTAATAATTCAAATAACTTCTACACTTGTCCAGTCGATGAAAGATATCGAAGCCGCATG
AATCTTCCATTCAGAATTAAAGGAGGCGATGAAACATTAGAGAAAGAATTTTTGAAAAAA
GCTGAACAACTTGGTATGATGCAGCTCAAGGGACATCGTTCTGTGGGTGGAATAAGAACA
TCACTTTACAATGCAATTACTGTCGAAAATGCTGAATTTCTCAATAAGTTTATGAACGAG
TTTTATAAAAATAACAAAATGTAA

>g158.t6 Gene=g158 Length=164
MQGGGTGQFSAVCMNLIGRTGSADYIVTGSWSLKAYKEASKYGTANLVFPKPDKFTTIPN
QSEWKLNPNASYVYYCDNETVDGVEFDFIPETHNIPLVCDMSSNFMSRTFDVSKFGLIFA
GAQKNIGPSGVTVVIIRDDLIGHALKITPSVFDYADNLFLLTCI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g158.t6 Gene3D G3DSA:3.40.640.10 - 1 158 2.1E-63
2 g158.t6 PANTHER PTHR43247 PHOSPHOSERINE AMINOTRANSFERASE 1 155 1.5E-65
3 g158.t6 PANTHER PTHR43247:SF1 PHOSPHOSERINE AMINOTRANSFERASE 1 155 1.5E-65
1 g158.t6 Pfam PF00266 Aminotransferase class-V 4 144 1.8E-24
5 g158.t6 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 115 134 -
4 g158.t6 SUPERFAMILY SSF53383 PLP-dependent transferases 1 155 2.57E-47

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