Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine–pyruvate aminotransferase, mitochondrial.

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.t15 TSS g17483.t15 13659535 13659535
chr_4 g17483 g17483.t15 isoform g17483.t15 13659588 13661346
chr_4 g17483 g17483.t15 exon g17483.t15.exon1 13659588 13659651
chr_4 g17483 g17483.t15 cds g17483.t15.CDS1 13659588 13659651
chr_4 g17483 g17483.t15 exon g17483.t15.exon2 13659877 13659991
chr_4 g17483 g17483.t15 cds g17483.t15.CDS2 13659877 13659991
chr_4 g17483 g17483.t15 exon g17483.t15.exon3 13660046 13660095
chr_4 g17483 g17483.t15 cds g17483.t15.CDS3 13660046 13660095
chr_4 g17483 g17483.t15 exon g17483.t15.exon4 13660215 13660591
chr_4 g17483 g17483.t15 cds g17483.t15.CDS4 13660215 13660591
chr_4 g17483 g17483.t15 exon g17483.t15.exon5 13660656 13660708
chr_4 g17483 g17483.t15 cds g17483.t15.CDS5 13660656 13660708
chr_4 g17483 g17483.t15 exon g17483.t15.exon6 13660794 13661195
chr_4 g17483 g17483.t15 cds g17483.t15.CDS6 13660794 13661195
chr_4 g17483 g17483.t15 exon g17483.t15.exon7 13661253 13661346
chr_4 g17483 g17483.t15 cds g17483.t15.CDS7 13661253 13661346
chr_4 g17483 g17483.t15 TTS g17483.t15 13661511 13661511

Sequences

>g17483.t15 Gene=g17483 Length=1155
ATGGATGTGCCAATTCCGGAAATTTTACAGACACCAATGGAAGTTGATGAAATGATAATG
ACAGGTGCTGGACCTTCAAATTATCATCCAAGGATAAGACATGCAATGTCATTACCTGTT
CTTGGTCATCTTCATCCTAAAACATTTAAAATCATGGATGACATTAAAATTGGTGTCAAT
TATCTACTTCAGACAAATAATTCTTACACATTTTGTATCTCTGGACCAGCTATCGAATGT
GCTTTTGTAAATTTGGTTGAAGACAACGATATAGTTGTTATTGGAAGTAGTGGCTATTGG
GGAATAAGAGCAGAAGATATTGCAAAACGATTAAATGCTGATGTAAAAGTCATCAATAAA
GAATTAGGAGAGCAAATTGAATTAGAAGAAACACGAATATTTTTTGAGCAATATCATCCA
AAAGTTTTCTTTTTGACTCATGGTGAATCAAGCACAGGAATGTTGCAACAAAATTTGGAA
CAATTTGGAAATTTATGTCAGGAATTTAATTGTCTTTTTGTGGTTGATTGCGTTATAACA
GTTGGATGCACTCCAGTTTATGTTGATAAATGGAATATTGATGTTGCTTTTATGGGAACA
CAAAAGGTTCTTAATGCACCACCAGGAATTTCTCCGATTACATTCAGTGCACGAGCTTTG
GATAAAATTGCAAAGAGAAAGACACCAGTAAAAAGCTATAATCTTGATGCAGTAAACCTT
GGTGAATATTGGAATTCTGGAAACCGTCCAAGAATTTATCATCATACAGTTTGTTCAACA
TTACTCTACGGTTTGCGAGAGGCAATTGCAATTTTCATTGAGAATGGTGGTTTAGAAGCT
TCTTGGAAAAATCATGAAAATGTTGCCAAACATTTTTATACTCTGTTGGAAAAGAATGGT
TTGGAATTATTCATTACTGATCCTAAAAATCGTGTTCCATCAGTTACAGCTATAAAAGTA
CCTGAGAATATCGATGCAAATGAAATTATAAAACATTCAATGAATGAATACAATGTTGAA
ATTAGTGGTGGTATAGGACCAATGTTGGGGGTAGTTTTGAGAGTTGGACTAATGGGAATA
AACTGTAATGAAAAAGTTGCAGAATGCGTTGCAAAAATTCTTATTGAAGCTATAAAAAAA
ATGAAAGAAGAATAA

>g17483.t15 Gene=g17483 Length=384
MDVPIPEILQTPMEVDEMIMTGAGPSNYHPRIRHAMSLPVLGHLHPKTFKIMDDIKIGVN
YLLQTNNSYTFCISGPAIECAFVNLVEDNDIVVIGSSGYWGIRAEDIAKRLNADVKVINK
ELGEQIELEETRIFFEQYHPKVFFLTHGESSTGMLQQNLEQFGNLCQEFNCLFVVDCVIT
VGCTPVYVDKWNIDVAFMGTQKVLNAPPGISPITFSARALDKIAKRKTPVKSYNLDAVNL
GEYWNSGNRPRIYHHTVCSTLLYGLREAIAIFIENGGLEASWKNHENVAKHFYTLLEKNG
LELFITDPKNRVPSVTAIKVPENIDANEIIKHSMNEYNVEISGGIGPMLGVVLRVGLMGI
NCNEKVAECVAKILIEAIKKMKEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g17483.t15 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 17 374 1.4E-129
7 g17483.t15 Gene3D G3DSA:3.40.640.10 - 29 275 1.4E-129
2 g17483.t15 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 2 380 7.8E-115
3 g17483.t15 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 2 380 7.8E-115
8 g17483.t15 PIRSF PIRSF000524 SPT 10 384 2.9E-92
1 g17483.t15 Pfam PF00266 Aminotransferase class-V 41 366 3.9E-40
5 g17483.t15 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 193 213 -
4 g17483.t15 SUPERFAMILY SSF53383 PLP-dependent transferases 5 381 1.47E-79

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

Pathway

  • This transcript belongs to the following pathways

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.

Raw TPM values