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 g17482 g17482.t86 TSS g17482.t86 13657411 13657411
chr_4 g17482 g17482.t86 isoform g17482.t86 13657851 13659082
chr_4 g17482 g17482.t86 exon g17482.t86.exon1 13657851 13657971
chr_4 g17482 g17482.t86 cds g17482.t86.CDS1 13657946 13657971
chr_4 g17482 g17482.t86 exon g17482.t86.exon2 13658022 13658071
chr_4 g17482 g17482.t86 cds g17482.t86.CDS2 13658022 13658071
chr_4 g17482 g17482.t86 exon g17482.t86.exon3 13658133 13658509
chr_4 g17482 g17482.t86 cds g17482.t86.CDS3 13658133 13658509
chr_4 g17482 g17482.t86 exon g17482.t86.exon4 13658572 13658624
chr_4 g17482 g17482.t86 cds g17482.t86.CDS4 13658572 13658624
chr_4 g17482 g17482.t86 exon g17482.t86.exon5 13658682 13659082
chr_4 g17482 g17482.t86 cds g17482.t86.CDS5 13658682 13659081
chr_4 g17482 g17482.t86 TTS g17482.t86 13659279 13659279

Sequences

>g17482.t86 Gene=g17482 Length=1002
AGGTGCTGGACCTTCAAATTATCATCCAAGAATAAGACATGCAATGTCATTACCTGTTCT
TGGTCATCTTCATCCTGAAACATTCAAAATCATGGATGACATTAAAATTGGTGTCAAGTC
ATTATCTACTTCAGACGAATAATTCTTACACATTTTGTATATCTGGATCAGCTATCGAAT
GTGCTCTTATGAATGTGATTGAAGACAATGACGTTATTGTTATCGGATGTTGTGGCCAAT
GGGGTACGCGTGCAGAAAACATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATA
AAGAACCAGGAGAGCAAATTGAAGTAGAAGAAACCCGAATATTTTTTGAGCAATATCACC
CAAAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGG
AACAATTTGGAAATTTGTGTCAGGAATTCGATTGTCTCTTTGTGGTTGATTGTGTTATAA
CAGTTGGATGCACTCCAGTTTATGTTGATAAATGGAAAATTGATGTTGCTTTTATGGGAA
CACAAAAGGTTCTTAATGCTCCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCTT
TTGAAAAAATCGTTAAAAGAAAGTCACCAGTAAAAAGCTACAATTATGATGCAGTAAATC
TCAGTAAATATTGGAAATCGGGCGATGAACCAAGAGTTTATCATCATACAGTTTGCTCAA
CATTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAAG
CTTCTTGGAAAAATCATCAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAATG
GTTTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTGTAAAAG
TTCCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATATAATGTTG
AAATCAGTGGTGGAATGGGACAAACTAAAGGAAAAATTTTAA

>g17482.t86 Gene=g17482 Length=302
MTLKLVSSHYLLQTNNSYTFCISGSAIECALMNVIEDNDVIVIGCCGQWGTRAENIAKRL
NADVKVINKEPGEQIEVEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFDC
LFVVDCVITVGCTPVYVDKWKIDVAFMGTQKVLNAPPGISPITFSARAFEKIVKRKSPVK
SYNYDAVNLSKYWKSGDEPRVYHHTVCSTLLYGLREAIAIFIENGGLEASWKNHQNVAKH
FYTLLEKNGLELFITDPKNRVPSVTAVKVPENIDANEIIKHSMNEYNVEISGGMGQTKGK
IL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g17482.t86 Gene3D G3DSA:3.40.640.10 - 9 224 5.1E-106
6 g17482.t86 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 226 302 5.1E-106
2 g17482.t86 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 9 302 7.3E-85
3 g17482.t86 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 9 302 7.3E-85
1 g17482.t86 Pfam PF00266 Aminotransferase class-V 23 293 1.6E-38
5 g17482.t86 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 142 162 -
4 g17482.t86 SUPERFAMILY SSF53383 PLP-dependent transferases 10 301 4.83E-65

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