General information for g12497.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Phospholipase A2.
Parent gene
- The parent gene g12497 is located on chr_1: 24009836..24010988 (+ strand)
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.t1 | TSS | g12497.t1 | 24008619 | 24008619 |
| chr_1 | g12497 | g12497.t1 | isoform | g12497.t1 | 24009180 | 24010201 |
| chr_1 | g12497 | g12497.t1 | exon | g12497.t1.exon1 | 24009180 | 24009392 |
| chr_1 | g12497 | g12497.t1 | cds | g12497.t1.CDS1 | 24009180 | 24009392 |
| chr_1 | g12497 | g12497.t1 | exon | g12497.t1.exon2 | 24009504 | 24009759 |
| chr_1 | g12497 | g12497.t1 | cds | g12497.t1.CDS2 | 24009504 | 24009759 |
| chr_1 | g12497 | g12497.t1 | exon | g12497.t1.exon3 | 24009816 | 24010201 |
| chr_1 | g12497 | g12497.t1 | cds | g12497.t1.CDS3 | 24009816 | 24010201 |
| chr_1 | g12497 | g12497.t1 | TTS | g12497.t1 | 24010344 | 24010344 |
Sequences
>g12497.t1 Gene=g12497 Length=855
ATGAAAAATATTCTGCATTTAATTTTGCCACTTATCATTCTCGCAAATGCTCAAAACATA
GAGATCTTTAACGAAAAAGCATGGATGGATGAAAAAGGCCGTGACAAATTTTTTGAATAT
TCCGATTCAGATATAATTGAGCCAGCAACTGTTTTGTTAAGAAGCAGAGAATCTAAATAC
AGTAACAACATTGATTTCGAGCAATTTGAGGAAAGTCAAAAATTAAAACCACAGTCATCG
GCAACTGTTCATATGAAAAATCATGGCACTAATTCTCCTCTAGGCGTGATTGATTTATTT
TTGAATTCTATCAAAAAATTTATACATACACAACCACAGCAATCACTAAAAGAACAAACT
AGACATTTTAAAAATGAAACGAGCAAAGGAATTGACATAAAATTTGACAATAATATTCAT
TCACTACCGAAATTTGGCAATCATCAAGATATGAAATTCATTTTGTTAGGTACAAAGTGG
TGTGGATCAGGAAGTATAGCAAAGGATAAAAACGATATTGGATATTTTTATCTAACAGAC
AATTGCTGTAGAGAGCATGATCTTTGTGAACAAGTCCTTGAGCCAGGTGATGAAAAATTT
GGATTGAAAAATTCTGGGAAATTCTCACGTCTGCATTGTGATTGTGATGATACATTTTAT
AAATGTTTGAAAGGAGTCAATACTTTGATAAGCAAGCAAATTGGAATTTTTTATTTTAAT
ATTCTTTCTCATCAATGTTTCAAAGAAGAGTTTCCCATCTCATGCGATACTAAAGTTAAA
GGTCGTTGTGTGAAATATACAAAGAACAGAGAAGGAATGAAATCATATCAATGGTTTGAT
AACAAATGGTTTTAA
>g12497.t1 Gene=g12497 Length=284
MKNILHLILPLIILANAQNIEIFNEKAWMDEKGRDKFFEYSDSDIIEPATVLLRSRESKY
SNNIDFEQFEESQKLKPQSSATVHMKNHGTNSPLGVIDLFLNSIKKFIHTQPQQSLKEQT
RHFKNETSKGIDIKFDNNIHSLPKFGNHQDMKFILLGTKWCGSGSIAKDKNDIGYFYLTD
NCCREHDLCEQVLEPGDEKFGLKNSGKFSRLHCDCDDTFYKCLKGVNTLISKQIGIFYFN
ILSHQCFKEEFPISCDTKVKGRCVKYTKNREGMKSYQWFDNKWF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12497.t1 | Gene3D | G3DSA:1.20.90.10 | Phospholipase A2 | 153 | 284 | 1.1E-43 |
| 2 | g12497.t1 | PANTHER | PTHR12253:SF35 | PHOSPHOLIPASE A2-LIKE PROTEIN | 119 | 280 | 2.5E-49 |
| 3 | g12497.t1 | PANTHER | PTHR12253 | RH14732P | 119 | 280 | 2.5E-49 |
| 1 | g12497.t1 | Pfam | PF05826 | Phospholipase A2 | 155 | 249 | 4.6E-34 |
| 9 | g12497.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 10 | g12497.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 11 | g12497.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 13 | - |
| 12 | g12497.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 8 | g12497.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 284 | - |
| 5 | g12497.t1 | ProSitePatterns | PS00118 | Phospholipase A2 histidine active site. | 182 | 189 | - |
| 4 | g12497.t1 | SUPERFAMILY | SSF48619 | Phospholipase A2, PLA2 | 154 | 281 | 2.23E-28 |
| 6 | g12497.t1 | 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
- This transcript has been annotated with K01047 (secretory phospholipase A2)
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.
