Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Phospholipase A2.

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_1 g12497 g12497.t7 TSS g12497.t7 24008619 24008619
chr_1 g12497 g12497.t7 isoform g12497.t7 24008860 24010201
chr_1 g12497 g12497.t7 exon g12497.t7.exon1 24008860 24009030
chr_1 g12497 g12497.t7 exon g12497.t7.exon2 24009095 24009392
chr_1 g12497 g12497.t7 cds g12497.t7.CDS1 24009180 24009392
chr_1 g12497 g12497.t7 exon g12497.t7.exon3 24009504 24009759
chr_1 g12497 g12497.t7 cds g12497.t7.CDS2 24009504 24009759
chr_1 g12497 g12497.t7 exon g12497.t7.exon4 24009816 24010201
chr_1 g12497 g12497.t7 cds g12497.t7.CDS3 24009816 24010201
chr_1 g12497 g12497.t7 TTS g12497.t7 24010344 24010344

Sequences

>g12497.t7 Gene=g12497 Length=1111
TTTGAATATCATATCGTACAAAGATATGCGTGATAAATAAGAGAAAAACGTGTGTGAATA
CCTTAAATGAATTTTAAACTAATTGACTTTTTTGTCACTCGCTCTCTCAGAATTAAAACA
AGTTTTTTTCTAACCTAATGTGTGTGATCTTGCTATTCCTGGATAAATAAAATTTGTTTC
ATCAACGCATCAGATAACTTGATTACAATTGTCTACTGAGCGTGTTTGTGCATAAAAAAT
AGAAAGTGAATTTAGAATGAAAAATATTCTGCATTTAATTTTGCCACTTATCATTCTCGC
AAATGCTCAAAACATAGAGATCTTTAACGAAAAAGCATGGATGGATGAAAAAGGCCGTGA
CAAATTTTTTGAATATTCCGATTCAGATATAATTGAGCCAGCAACTGTTTTGTTAAGAAG
CAGAGAATCTAAATACAGTAACAACATTGATTTCGAGCAATTTGAGGAAAGTCAAAAATT
AAAACCACAGTCATCGGCAACTGTTCATATGAAAAATCATGGCACTAATTCTCCTCTAGG
CGTGATTGATTTATTTTTGAATTCTATCAAAAAATTTATACATACACAACCACAGCAATC
ACTAAAAGAACAAACTAGACATTTTAAAAATGAAACGAGCAAAGGAATTGACATAAAATT
TGACAATAATATTCATTCACTACCGAAATTTGGCAATCATCAAGATATGAAATTCATTTT
GTTAGGTACAAAGTGGTGTGGATCAGGAAGTATAGCAAAGGATAAAAACGATATTGGATA
TTTTTATCTAACAGACAATTGCTGTAGAGAGCATGATCTTTGTGAACAAGTCCTTGAGCC
AGGTGATGAAAAATTTGGATTGAAAAATTCTGGGAAATTCTCACGTCTGCATTGTGATTG
TGATGATACATTTTATAAATGTTTGAAAGGAGTCAATACTTTGATAAGCAAGCAAATTGG
AATTTTTTATTTTAATATTCTTTCTCATCAATGTTTCAAAGAAGAGTTTCCCATCTCATG
CGATACTAAAGTTAAAGGTCGTTGTGTGAAATATACAAAGAACAGAGAAGGAATGAAATC
ATATCAATGGTTTGATAACAAATGGTTTTAA

>g12497.t7 Gene=g12497 Length=284
MKNILHLILPLIILANAQNIEIFNEKAWMDEKGRDKFFEYSDSDIIEPATVLLRSRESKY
SNNIDFEQFEESQKLKPQSSATVHMKNHGTNSPLGVIDLFLNSIKKFIHTQPQQSLKEQT
RHFKNETSKGIDIKFDNNIHSLPKFGNHQDMKFILLGTKWCGSGSIAKDKNDIGYFYLTD
NCCREHDLCEQVLEPGDEKFGLKNSGKFSRLHCDCDDTFYKCLKGVNTLISKQIGIFYFN
ILSHQCFKEEFPISCDTKVKGRCVKYTKNREGMKSYQWFDNKWF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g12497.t7 Gene3D G3DSA:1.20.90.10 Phospholipase A2 153 284 1.1E-43
2 g12497.t7 PANTHER PTHR12253:SF35 PHOSPHOLIPASE A2-LIKE PROTEIN 119 280 2.5E-49
3 g12497.t7 PANTHER PTHR12253 RH14732P 119 280 2.5E-49
1 g12497.t7 Pfam PF05826 Phospholipase A2 155 249 4.6E-34
9 g12497.t7 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
10 g12497.t7 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
11 g12497.t7 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 13 -
12 g12497.t7 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 17 -
8 g12497.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 284 -
5 g12497.t7 ProSitePatterns PS00118 Phospholipase A2 histidine active site. 182 189 -
4 g12497.t7 SUPERFAMILY SSF48619 Phospholipase A2, PLA2 154 281 2.23E-28
6 g12497.t7 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -

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:0006644 phospholipid metabolic process BP
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