Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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_2 g4211 g4211.t17 TSS g4211.t17 218497 218497
chr_2 g4211 g4211.t17 isoform g4211.t17 219070 220126
chr_2 g4211 g4211.t17 exon g4211.t17.exon1 219070 219368
chr_2 g4211 g4211.t17 cds g4211.t17.CDS1 219111 219368
chr_2 g4211 g4211.t17 exon g4211.t17.exon2 219432 219484
chr_2 g4211 g4211.t17 cds g4211.t17.CDS2 219432 219484
chr_2 g4211 g4211.t17 exon g4211.t17.exon3 219536 219860
chr_2 g4211 g4211.t17 cds g4211.t17.CDS3 219536 219860
chr_2 g4211 g4211.t17 exon g4211.t17.exon4 220015 220126
chr_2 g4211 g4211.t17 cds g4211.t17.CDS4 220015 220047
chr_2 g4211 g4211.t17 TTS g4211.t17 220171 220171

Sequences

>g4211.t17 Gene=g4211 Length=789
GGGCTGGTAATATAGCAAAGCGTTTGAACGCTAATGTGAAAATGCTTTATAAGCATGTAG
GTGAACAAGTTTCACTTAAAGAAACACGCGAATGTTTCAGAATGTATAAGCCCAAAATTT
TCTTCATGGTACATGGTGAATCTAGTACAGGAATGATACAAAATAATATCGAAGATTATG
GGAATTTATGTCGAGAGTTTGATTGTCTTTTTATTGTCGATTGCGTTATCACGCTTGGCT
GCACACCACTCTTTGTCGATAAATGGAAGATTGATATAGCTTATACAGGCACACAGAAGG
TCTTAAATGCACCACCCGGTATTTCTCCAATCACATTCAGTCAACGAGCATACGATAAAA
TTGTCATGAGAAAATCATTAGTGAAGAGTTATAATTACGATGCGATTCTGCTTGGTGAAT
ATTGGAATTGCTTTCCACTTCGTCCGCGAATTTACCACCATACAATCTGCTCTTCATTAC
TTTATGGCTTGCGAGAAGCAATTGCAATTTTTATTGAGAATGGTGGATTAGAAGCATCAT
GGGAAAAGCATGGAAAGGTTACGAGAAAATTTCATTCTATACTAGAAAAAAATGGTTTAC
AATTGTTCATTGAAAACGCAGAAAATAGATGTCCATCAGTGACATCAATCAAAGTTCCAG
ATAATATTGATACTCATAATCGGTCTTATGGGAGTAAACTGCAAAGATGAGCTTGCAGAG
CGAGTGGCAAATATTCTCATCGAAGCCATAAGAGCAATTGAAAATGAAAAGGTTGTATCA
AAGATTTAA

>g4211.t17 Gene=g4211 Length=222
MLYKHVGEQVSLKETRECFRMYKPKIFFMVHGESSTGMIQNNIEDYGNLCREFDCLFIVD
CVITLGCTPLFVDKWKIDIAYTGTQKVLNAPPGISPITFSQRAYDKIVMRKSLVKSYNYD
AILLGEYWNCFPLRPRIYHHTICSSLLYGLREAIAIFIENGGLEASWEKHGKVTRKFHSI
LEKNGLQLFIENAENRCPSVTSIKVPDNIDTHNRSYGSKLQR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g4211.t17 Gene3D G3DSA:3.40.640.10 - 2 160 9.0E-73
6 g4211.t17 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 162 212 9.0E-73
2 g4211.t17 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 7 211 8.4E-58
3 g4211.t17 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 7 211 8.4E-58
1 g4211.t17 Pfam PF00266 Aminotransferase class-V 22 212 1.4E-21
5 g4211.t17 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 77 97 -
4 g4211.t17 SUPERFAMILY SSF53383 PLP-dependent transferases 7 212 2.04E-45

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