Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g17573 g17573.t9 TSS g17573.t9 13958237 13958237
chr_4 g17573 g17573.t9 isoform g17573.t9 13958883 13959981
chr_4 g17573 g17573.t9 exon g17573.t9.exon1 13958883 13958961
chr_4 g17573 g17573.t9 exon g17573.t9.exon2 13959022 13959099
chr_4 g17573 g17573.t9 cds g17573.t9.CDS1 13959091 13959099
chr_4 g17573 g17573.t9 exon g17573.t9.exon3 13959165 13959255
chr_4 g17573 g17573.t9 cds g17573.t9.CDS2 13959165 13959255
chr_4 g17573 g17573.t9 exon g17573.t9.exon4 13959313 13959981
chr_4 g17573 g17573.t9 cds g17573.t9.CDS3 13959313 13959758
chr_4 g17573 g17573.t9 TTS g17573.t9 13959980 13959980

Sequences

>g17573.t9 Gene=g17573 Length=917
TTAGTAATTTTTTCAAGCGTAACAATTTTCTTTCGTGGACCAATCGAAGTTATTATTTTA
ATTCATAATTTTCTTTTAAGAATGAGAATCCCGTATATGAAAATTTTAGTTTATATTCTC
ACTTTCGCGGGATATTGTTATTCCGGTTATGGAAGTGAATTTCATAACTCTTAGTAAAAA
ATTTCAATCAGTTCATGAGATTTTTGATACAGCTGTAGAAGAAAATTGTGTTTTTAAATG
TCCTGGAAATCCCGACATAAGGCCTAAACCAAATAAACTTCATGTACCATCAAGTGATTC
TTGTGGTTCACTTGGATTGAAAATTAATACCGATTATTTACCAGCACCAGAGATGGCAAA
ATGCTGTGATGCTCATGACATTTGCTATGAGACATGTATTAGTGGCAAAGAATTATGTGA
TCTTGATTTTAAAAGATGCTTATATAAGTACTGTGACAGCTTTGAAAAAAGCGCTGCTGG
TGAACTGCTGATTAAAGGATGTAAAGCAGCAGCCAAAACATTATTTACTGGTACAATGGT
ACTTGGCTGTAAAAGTTATCTTGATGCACAAGCAAGAGCATGCTATTGTCCAGTGAATCA
GAATCAAAATGAACAAAATCAAAGAAAATATGATAAATATGAATACAAACAAAAACAAAA
AGATAAAAAATTTAAATGGCAAAGTGATTTATGAATTGATTACAAGAATTTTATATGCGT
AATTTTCTTACTGGATCGTAAAGTCAAATAAATAAAACTTCCTCATTCATGCCTTTATAT
CAACCTTTTTGCGATATCAACATAAACAAATCCATTAAGTATTTATAAAATACCATGACG
AACTCATTTTTAAAAAAATTGTTTTAAATGATTTCCTTTGATGAGGCCTAAAATAAAGAA
TTTACTAAAAAATAAAA

>g17573.t9 Gene=g17573 Length=181
MEVNFITLSKKFQSVHEIFDTAVEENCVFKCPGNPDIRPKPNKLHVPSSDSCGSLGLKIN
TDYLPAPEMAKCCDAHDICYETCISGKELCDLDFKRCLYKYCDSFEKSAAGELLIKGCKA
AAKTLFTGTMVLGCKSYLDAQARACYCPVNQNQNEQNQRKYDKYEYKQKQKDKKFKWQSD
L

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g17573.t9 PANTHER PTHR12824:SF8 GXIVSPLA2, ISOFORM A 7 160 1.2E-40
3 g17573.t9 PANTHER PTHR12824 GROUP XII SECRETORY PHOSPHOLIPASE A2 FAMILY MEMBER 7 160 1.2E-40
1 g17573.t9 Pfam PF06951 Group XII secretory phospholipase A2 precursor (PLA2G12) 4 152 2.0E-43
5 g17573.t9 ProSitePatterns PS00118 Phospholipase A2 histidine active site. 72 79 -
4 g17573.t9 SUPERFAMILY SSF48619 Phospholipase A2, PLA2 38 133 2.01E-15

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:0050482 arachidonic acid secretion BP
GO:0016042 lipid catabolic process BP
GO:0006644 phospholipid metabolic process BP
GO:0005509 calcium ion binding MF
GO:0005576 extracellular region CC
GO:0004623 phospholipase A2 activity MF

KEGG

Orthology

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. There were no conditions that were differentially expressed