General information for g12497.t11
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.t11 | TSS | g12497.t11 | 24009522 | 24009522 |
| chr_1 | g12497 | g12497.t11 | isoform | g12497.t11 | 24009836 | 24010988 |
| chr_1 | g12497 | g12497.t11 | exon | g12497.t11.exon1 | 24009836 | 24010120 |
| chr_1 | g12497 | g12497.t11 | cds | g12497.t11.CDS1 | 24009836 | 24010120 |
| chr_1 | g12497 | g12497.t11 | exon | g12497.t11.exon2 | 24010214 | 24010815 |
| chr_1 | g12497 | g12497.t11 | cds | g12497.t11.CDS2 | 24010214 | 24010228 |
| chr_1 | g12497 | g12497.t11 | exon | g12497.t11.exon3 | 24010879 | 24010988 |
| chr_1 | g12497 | g12497.t11 | TTS | g12497.t11 | NA | NA |
Sequences
>g12497.t11 Gene=g12497 Length=997
GGAAGTATAGCAAAGGATAAAAACGATATTGGATATTTTTATCTAACAGACAATTGCTGT
AGAGAGCATGATCTTTGTGAACAAGTCCTTGAGCCAGGTGATGAAAAATTTGGATTGAAA
AATTCTGGGAAATTCTCACGTCTGCATTGTGATTGTGATGATACATTTTATAAATGTTTG
AAAGGAGTCAATACTTTGATAAGCAAGCAAATTGGAATTTTTTATTTTAATATTCTTTCT
CATCAATGTTTCAAAGAAGAGTTTCCCATCTCATGCGATACTAAACTTATCAATGTTTAA
TTTTATTTGTATTTGTAATTGCTGCAGGTGAAACTGTTATGACATTTCTTTTTATTCCTG
ATCTATTTGATGTTCTGTTTCTGTTTCCATTTAATAAAGTTGACGTTTTTATGTTTAATA
TCGCTGATGGTGTTTCTTTTTGTACAGTGCATAACTGTATGAGATTTGATATTTCTATTG
TTAGTTCTTCAAGTTGTTGATCAGTTAAATTATCTATAAAATTTAAATGGGACTCGTCGT
TGTCATTTGACTTTGCATCTTCAATTTGTGAAAACTGAACAGTGTCTTCAACATTCTCAT
TATTACTTTGTAATGGTTCATTAATTATCGAATCTGCTAAATAATCTTTAAACCTTTCAT
CACTAACAAATGGACTTTGATGACATATTTCTCTAGTTTCAGGAACTTTTTCTGTTGAAT
TTACTTTTAGTGATCGATAATTATTAAACCATTCGTAATGCTCATTTGAGGTTTTCTTGA
AAGTTAATGTAGATTCGATGCATAATTTCTTGAATTCTACAGCTTGCTTTAAACTTTTAA
TGCATCGTTTACAGATTAAAGCCTGTTCTTTCTCAACTTCTACAATCACCGAAATATTTG
CCAAATAATTGAGTTCTAATATTAATTCTATATTTTCAAACAATGGTAACATATCGTGAA
GAGTATCTACTCTACAACAAATTCTACAAGTCCTCAT
>g12497.t11 Gene=g12497 Length=99
GSIAKDKNDIGYFYLTDNCCREHDLCEQVLEPGDEKFGLKNSGKFSRLHCDCDDTFYKCL
KGVNTLISKQIGIFYFNILSHQCFKEEFPISCDTKLINV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g12497.t11 | Gene3D | G3DSA:1.20.90.10 | Phospholipase A2 | 1 | 98 | 0 |
| 2 | g12497.t11 | PANTHER | PTHR12253:SF35 | PHOSPHOLIPASE A2-LIKE PROTEIN | 1 | 94 | 0 |
| 3 | g12497.t11 | PANTHER | PTHR12253 | RH14732P | 1 | 94 | 0 |
| 1 | g12497.t11 | Pfam | PF05826 | Phospholipase A2 | 1 | 86 | 0 |
| 4 | g12497.t11 | SUPERFAMILY | SSF48619 | Phospholipase A2, PLA2 | 1 | 93 | 0 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
