Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Group 3 secretory 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 g13362 g13362.t18 TSS g13362.t18 29516185 29516185
chr_1 g13362 g13362.t18 isoform g13362.t18 29516415 29521109
chr_1 g13362 g13362.t18 exon g13362.t18.exon1 29516415 29516998
chr_1 g13362 g13362.t18 exon g13362.t18.exon2 29517064 29517375
chr_1 g13362 g13362.t18 cds g13362.t18.CDS1 29517107 29517375
chr_1 g13362 g13362.t18 exon g13362.t18.exon3 29517891 29518352
chr_1 g13362 g13362.t18 cds g13362.t18.CDS2 29517891 29518352
chr_1 g13362 g13362.t18 exon g13362.t18.exon4 29518532 29518750
chr_1 g13362 g13362.t18 cds g13362.t18.CDS3 29518532 29518750
chr_1 g13362 g13362.t18 exon g13362.t18.exon5 29520843 29520936
chr_1 g13362 g13362.t18 cds g13362.t18.CDS4 29520843 29520936
chr_1 g13362 g13362.t18 exon g13362.t18.exon6 29521011 29521109
chr_1 g13362 g13362.t18 cds g13362.t18.CDS5 29521011 29521109
chr_1 g13362 g13362.t18 TTS g13362.t18 29521376 29521376

Sequences

>g13362.t18 Gene=g13362 Length=1770
ACTATTTTGCGAAATTTTACTTGGCAATGAGTAAAAAAAATTTTCTACTGTAATGAGACT
CGTTCGATCAGTCGATTACTCATGATTGGTTGTAGAATTTGATGACGTCTTGTCGTACCA
CAGTTCTGAACTTATGTTTTATGCTCATTTCTTTCTCAAACATTGCAAGTTGCATCAAAA
TAGAACGATCGCGAAAAATATTTTGTTGCATTTTCGTTCAACTTCTTTTACTCAGCTTTA
ATTCATTAACCTGCTTAAATCGTTTGATGTTTGGCAAACAAAAAACATTTTTTTTTTATT
TTCTTATGTCTTTTTAATTGTGTGTCATCATGTGTAAAAACTCTATATTTAAGCAAGAAA
GAAAGATTTTTATTTATTGTGGCACACATGAGTACAATTTTTGTAACAATGAATTTTACT
AACCAAACATATGCTGCTGTGATATTTTTCATACACGTCGTGTAATCTTTAGTGATTAAG
AAGTTATATCTGTTATTTCTAATTAACCATTTACGATAAAAATTCACACATTTTTTTATC
ACAAAAAATTTACGATATGATGATCGCGCGTGCTTTGGTCACAAGAATATTGTATTACAA
ATATTTAATAAACAAGTGGACAAAGTGATGACGAACATTTATCATGAAAAATATTTTTTC
TTATACATCATTGTCTTTATAATATGCATTATCAATCAATGTACAAGCATTAGTGATTTA
AATCATTCAAATTATAAAAATGAAAATAAAAATTTCACACATCATCAGCAAAAAGACAAT
TTTCTTATCATTGATCATCTCAATGATAACGAACGAGAGACGAGACTAAAATGGAAAAAT
CTCATGGGAAAGGAAACGACACTTGATATGGACAACAATGAAAGATTTGTTAACAGTTCT
TTGAAATTAACGTCTCTATGGCAACTGACAGATGGCAAAGATTTTGCACAACTCATTTTT
AATGGTAATAGTCTCATCGATTGTGAAAATATTGATAATGGAAATGATATCATTGGTGAT
TTCGTGAGTAAATTCATTGAAGAATATCAATTTATCCGTCATGAGAAATTAAGTAGTACA
AAACATGCAAAGAAGCATCATCAATACCAACAGAATGCGAATCTTAATGAAGAAGTACTT
AAAATGAAGTCAAATGTAAAGTTTATTCAACTGAAAAAATTACAAGATATTCCCGAGCAT
TTACTCAGGCTCATGAATTTGAAAAAATTGAAAAAACAATGCAATCGTTTGCATAAAAAA
ATAAAACAAAAATTGCAACAACAACATCATCATCATACGGTCGATGAAGAAGAAGATGAA
GAAGATTTTAATGCCAAAAATGAAAATATGATACACAGAACAAAACGTCAAACTGACTCA
TGGTTTTTGGCACCAAATTCGAAATGGTGTGGTAGTGGAAGTAGTGCTAATGGTTATAAA
GAACTGGGTCCTTCAAAAGCTGACACATGCTGTCGAAGACATGACATTTGTAAAGTTAAT
ATACCACCACTTGAGAAGCGTTATAATCTTTTTAATATTAGGCCATTTACTATAAGTGCA
TGTCGTTGCGATAGAAGATTCAGAACGTGCTTAAAGATTGCAGATAGTAACGACAGTCAC
TTAGTTGGAAAATTATTTTTCAATATCATTCAAACTAAATGCTTCGTGCTGAAATCAGTG
CAGGAGTGTATTTTATACAGTTGGTGGGGAAAATGTTTGAAATTCAAGACCAAGAAGCAA
GCGTATCTTCGAGATAATCCAAAGTACTAA

>g13362.t18 Gene=g13362 Length=380
MTNIYHEKYFFLYIIVFIICIINQCTSISDLNHSNYKNENKNFTHHQQKDNFLIIDHLND
NERETRLKWKNLMGKETTLDMDNNERFVNSSLKLTSLWQLTDGKDFAQLIFNGNSLIDCE
NIDNGNDIIGDFVSKFIEEYQFIRHEKLSSTKHAKKHHQYQQNANLNEEVLKMKSNVKFI
QLKKLQDIPEHLLRLMNLKKLKKQCNRLHKKIKQKLQQQHHHHTVDEEEDEEDFNAKNEN
MIHRTKRQTDSWFLAPNSKWCGSGSSANGYKELGPSKADTCCRRHDICKVNIPPLEKRYN
LFNIRPFTISACRCDRRFRTCLKIADSNDSHLVGKLFFNIIQTKCFVLKSVQECILYSWW
GKCLKFKTKKQAYLRDNPKY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g13362.t18 Coils Coil Coil 163 183 -
6 g13362.t18 Coils Coil Coil 195 218 -
5 g13362.t18 Gene3D G3DSA:1.20.90.10 Phospholipase A2 253 379 1.5E-35
13 g13362.t18 MobiDBLite mobidb-lite consensus disorder prediction 214 234 -
2 g13362.t18 PANTHER PTHR12253:SF33 PHOSPHOLIPASE A2 GROUP III, ISOFORM B 182 380 1.7E-58
3 g13362.t18 PANTHER PTHR12253 RH14732P 182 380 1.7E-58
1 g13362.t18 Pfam PF05826 Phospholipase A2 255 348 9.3E-33
8 g13362.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 8 -
10 g13362.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 9 29 -
9 g13362.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 30 380 -
12 g13362.t18 ProSitePatterns PS00118 Phospholipase A2 histidine active site. 281 288 -
4 g13362.t18 SUPERFAMILY SSF48619 Phospholipase A2, PLA2 254 375 1.08E-27
11 g13362.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 9 28 -

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