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.t11 TSS g17573.t11 13958237 13958237
chr_4 g17573 g17573.t11 isoform g17573.t11 13958900 13959656
chr_4 g17573 g17573.t11 exon g17573.t11.exon1 13958900 13958961
chr_4 g17573 g17573.t11 exon g17573.t11.exon2 13959022 13959255
chr_4 g17573 g17573.t11 cds g17573.t11.CDS1 13959024 13959255
chr_4 g17573 g17573.t11 exon g17573.t11.exon3 13959313 13959656
chr_4 g17573 g17573.t11 cds g17573.t11.CDS2 13959313 13959656
chr_4 g17573 g17573.t11 TTS g17573.t11 13959980 13959980

Sequences

>g17573.t11 Gene=g17573 Length=640
CGTAACAATTTTCTTTCGTGGACCAATCGAAGTTATTATTTTAATTCATAATTTTCTTTT
AAGAATGAGAATCCCGTATATGAAAATTTTAGTTTATATTCTCACTTTCGCGGGATATTG
TTATTCCGGTTATGGAAGTGGTATGTTAAAATCATTAAGAGATGCTGTCCTCAGTGCTGA
ATTTATATTTGGTGATTTCTTTAAGAATTTCATAACTCTTAGTAAAAAATTTCAATCAGT
TCATGAGATTTTTGATACAGCTGTAGAAGAAAATTGTGTTTTTAAATGTCCTGGAAATCC
CGACATAAGGCCTAAACCAAATAAACTTCATGTACCATCAAGTGATTCTTGTGGTTCACT
TGGATTGAAAATTAATACCGATTATTTACCAGCACCAGAGATGGCAAAATGCTGTGATGC
TCATGACATTTGCTATGAGACATGTATTAGTGGCAAAGAATTATGTGATCTTGATTTTAA
AAGATGCTTATATAAGTACTGTGACAGCTTTGAAAAAAGCGCTGCTGGTGAACTGCTGAT
TAAAGGATGTAAAGCAGCAGCCAAAACATTATTTACTGGTACAATGGTACTTGGCTGTAA
AAGTTATCTTGATGCACAAGCAAGAGCATGCTATTGTCCA

>g17573.t11 Gene=g17573 Length=192
MRIPYMKILVYILTFAGYCYSGYGSGMLKSLRDAVLSAEFIFGDFFKNFITLSKKFQSVH
EIFDTAVEENCVFKCPGNPDIRPKPNKLHVPSSDSCGSLGLKINTDYLPAPEMAKCCDAH
DICYETCISGKELCDLDFKRCLYKYCDSFEKSAAGELLIKGCKAAAKTLFTGTMVLGCKS
YLDAQARACYCP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g17573.t11 PANTHER PTHR12824:SF8 GXIVSPLA2, ISOFORM A 2 192 1.5E-43
3 g17573.t11 PANTHER PTHR12824 GROUP XII SECRETORY PHOSPHOLIPASE A2 FAMILY MEMBER 2 192 1.5E-43
1 g17573.t11 Pfam PF06951 Group XII secretory phospholipase A2 precursor (PLA2G12) 20 191 2.7E-47
8 g17573.t11 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
9 g17573.t11 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 7 -
10 g17573.t11 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 8 16 -
11 g17573.t11 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 21 -
7 g17573.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 192 -
6 g17573.t11 ProSitePatterns PS00118 Phospholipase A2 histidine active site. 116 123 -
5 g17573.t11 SUPERFAMILY SSF48619 Phospholipase A2, PLA2 82 177 2.23E-15
4 g17573.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 24 -

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.

Raw TPM values