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.t24 TSS g17483.t24 13659535 13659535
chr_4 g17483 g17483.t24 isoform g17483.t24 13659588 13661346
chr_4 g17483 g17483.t24 exon g17483.t24.exon1 13659588 13659651
chr_4 g17483 g17483.t24 exon g17483.t24.exon2 13659877 13660034
chr_4 g17483 g17483.t24 cds g17483.t24.CDS1 13660013 13660034
chr_4 g17483 g17483.t24 exon g17483.t24.exon3 13660215 13660591
chr_4 g17483 g17483.t24 cds g17483.t24.CDS2 13660215 13660591
chr_4 g17483 g17483.t24 exon g17483.t24.exon4 13660656 13660708
chr_4 g17483 g17483.t24 cds g17483.t24.CDS3 13660656 13660708
chr_4 g17483 g17483.t24 exon g17483.t24.exon5 13660794 13661195
chr_4 g17483 g17483.t24 cds g17483.t24.CDS4 13660794 13661195
chr_4 g17483 g17483.t24 exon g17483.t24.exon6 13661253 13661346
chr_4 g17483 g17483.t24 cds g17483.t24.CDS5 13661253 13661346
chr_4 g17483 g17483.t24 TTS g17483.t24 13661511 13661511

Sequences

>g17483.t24 Gene=g17483 Length=1148
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAG
TCAGTAAAAATAATTTTTTAATGAATTTAATAATCTTAATTTCTATCGAATGTGCTTTTG
TAAATTTGGTTGAAGACAACGATATAGTTGTTATTGGAAGTAGTGGCTATTGGGGAATAA
GAGCAGAAGATATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATAAAGAATTAG
GAGAGCAAATTGAATTAGAAGAAACACGAATATTTTTTGAGCAATATCATCCAAAAGTTT
TCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAACAATTTG
GAAATTTATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGTTATAACAGTTGGAT
GCACTCCAGTTTATGTTGATAAATGGAATATTGATGTTGCTTTTATGGGAACACAAAAGG
TTCTTAATGCACCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCTTTGGATAAAA
TTGCAAAGAGAAAGACACCAGTAAAAAGCTATAATCTTGATGCAGTAAACCTTGGTGAAT
ATTGGAATTCTGGAAACCGTCCAAGAATTTATCATCATACAGTTTGTTCAACATTACTCT
ACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAAGCTTCTTGGA
AAAATCATGAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAATGGTTTGGAAT
TATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTATAAAAGTACCTGAGA
ATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATACAATGTTGAAATTAGTG
GTGGTATAGGACCAATGTTGGGGGTAGTTTTGAGAGTTGGACTAATGGGAATAAACTGTA
ATGAAAAAGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCTATAAAAAAAATGAAAG
AAGAATAA

>g17483.t24 Gene=g17483 Length=315
MNLIILISIECAFVNLVEDNDIVVIGSSGYWGIRAEDIAKRLNADVKVINKELGEQIELE
ETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFNCLFVVDCVITVGCTPVYVD
KWNIDVAFMGTQKVLNAPPGISPITFSARALDKIAKRKTPVKSYNLDAVNLGEYWNSGNR
PRIYHHTVCSTLLYGLREAIAIFIENGGLEASWKNHENVAKHFYTLLEKNGLELFITDPK
NRVPSVTAIKVPENIDANEIIKHSMNEYNVEISGGIGPMLGVVLRVGLMGINCNEKVAEC
VAKILIEAIKKMKEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g17483.t24 Coils Coil Coil 302 315 -
8 g17483.t24 Gene3D G3DSA:3.40.640.10 - 8 206 4.2E-107
7 g17483.t24 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 208 305 4.2E-107
2 g17483.t24 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 8 311 1.4E-90
3 g17483.t24 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 8 311 1.4E-90
1 g17483.t24 Pfam PF00266 Aminotransferase class-V 8 297 2.9E-37
5 g17483.t24 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 124 144 -
4 g17483.t24 SUPERFAMILY SSF53383 PLP-dependent transferases 8 312 1.24E-69
6 g17483.t24 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -

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