General information for g996.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Acidic phospholipase A2 2.
Parent gene
- The parent gene g996 is located on chr_3: 7375106..7378218 (- 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_3 | g996 | g996.t1 | isoform | g996.t1 | 7375106 | 7378218 |
| chr_3 | g996 | g996.t1 | exon | g996.t1.exon1 | 7375106 | 7375323 |
| chr_3 | g996 | g996.t1 | cds | g996.t1.CDS1 | 7375106 | 7375323 |
| chr_3 | g996 | g996.t1 | exon | g996.t1.exon2 | 7375442 | 7375554 |
| chr_3 | g996 | g996.t1 | cds | g996.t1.CDS2 | 7375442 | 7375554 |
| chr_3 | g996 | g996.t1 | exon | g996.t1.exon3 | 7375611 | 7375721 |
| chr_3 | g996 | g996.t1 | cds | g996.t1.CDS3 | 7375611 | 7375721 |
| chr_3 | g996 | g996.t1 | exon | g996.t1.exon4 | 7377015 | 7378029 |
| chr_3 | g996 | g996.t1 | cds | g996.t1.CDS4 | 7377015 | 7378029 |
| chr_3 | g996 | g996.t1 | exon | g996.t1.exon5 | 7378149 | 7378218 |
| chr_3 | g996 | g996.t1 | cds | g996.t1.CDS5 | 7378149 | 7378218 |
| chr_3 | g996 | g996.t1 | TSS | g996.t1 | NA | NA |
| chr_3 | g996 | g996.t1 | TTS | g996.t1 | NA | NA |
Sequences
>g996.t1 Gene=g996 Length=1527
ATGGAAAAGAAATTTACAATCAAATATTTGGCATTTTTGTGGATTATTTCGATTTCAACA
ACGCATTGTGCACTTAAACTTCAAATTACATCGCCAATTCATATTGTTAAAAATTTTAAT
CTTCCACAAAGACATGCAACTTTGCATCACAAGTCACCAAATGAAATGAAATTGCATATC
AAAAAAGTTCTCAATATGCACACCGAAAATGCCACACTTGATCATTTCATCACGAAAATG
TTTAATATTCAGAATTTAAATCCAACTTATGTTTTTCGATTGCCTGGTAAAAATCGAATT
CTTACATTTCGCAAATCAGATTTTTCTATCGCAATTTTTCCTAACATCACAAACATTAAT
AAATTTAGTAAAAACAATCAAATGTTGCATTCATCGTCATCAACTAATCATCATGTAAAA
ACAAAAAGTGAAGAAAATTTGGATGAGTTGAAACATGAACGATTGATTTTTCAAAAGAAT
TTAAATGGCAATTACGATGATGCGGATTATGATGAGAATATGAAGAAAATTGTAGAAGAA
AATGGTCGACAAGAGAGAGAATTTATTGAATTTTTAAATGAACTCAATGAGGATTTAAAT
GAAGAAAATTTAACAAGAAATATCAATGCACAAAAATTGACTAATCAAGTGAAAAAGAAT
TCAAAGAAGAAAGATGAATGGGAAGAATTAGGTCTTGATGGTTGGAGTGGAATGATGGTA
AAATCAAAAGAAGAATTGCCTAAAAAAGAAAGAAATAAACAGCAGAAGAAAATTGTTGCG
ACTGCTTTAGTTCCTTTTCTTCATAATTTTGATCCTTTCTCAATACTCAAGTCACAACCG
ACAGCGACAAAAATTAAAACAAGTGTCAATAGACCTCAAATGACATCACATGAAATTGAA
ACAGAAGAGTTCAATAACCAATTGTCAATTTTACTTGAAGATGAAAAAATTCTACTCAAT
AGAACTGGACGGTTGCCAAACGTTCGTTGGCCTGTCACCTCAAACAGAAATCAACATAAC
GATGAAGATATTTACATAGCAAGGGCAAATAATCCATTTGGGCATTCAACTAAATGGAAA
TATAGAAACTCAAGTGATGACAATTCACATCGTGAAGGAAGATCAAAGCGTGGTGTTGTT
CATCTTTATTCAATGATTAAATGTGCAACTTCATGTGATCCCTTGCAGTATAAAGGTTAT
GGATGCTATTGCGGATTTTTAGGCTCCGGAAGAGCTTTAGATGGAATTGATCGCTGTTGC
AAAGCTCATGACTATTGCTATGGAAATGCTAATTGTTTCTTCTATACTGAATATTTGGTA
CCATATTTGTGGAAATGTTATAGAGGAAAGCCTTTGTGTGCATTAGATAATGGTGAATGG
GGAGGTGTGAATAGCTGTGCAACAAAACTTTGCGAATGCGACAGAGCATTATCAAAATGT
TTAAGGCAATATTATTGTCCCAGAAAGCGAGCTGTTTGTAGTTCAAACCCATTTAGATTG
TTGCAAAATCTTGTAATGGTTTTCTAA
>g996.t1 Gene=g996 Length=508
MEKKFTIKYLAFLWIISISTTHCALKLQITSPIHIVKNFNLPQRHATLHHKSPNEMKLHI
KKVLNMHTENATLDHFITKMFNIQNLNPTYVFRLPGKNRILTFRKSDFSIAIFPNITNIN
KFSKNNQMLHSSSSTNHHVKTKSEENLDELKHERLIFQKNLNGNYDDADYDENMKKIVEE
NGRQEREFIEFLNELNEDLNEENLTRNINAQKLTNQVKKNSKKKDEWEELGLDGWSGMMV
KSKEELPKKERNKQQKKIVATALVPFLHNFDPFSILKSQPTATKIKTSVNRPQMTSHEIE
TEEFNNQLSILLEDEKILLNRTGRLPNVRWPVTSNRNQHNDEDIYIARANNPFGHSTKWK
YRNSSDDNSHREGRSKRGVVHLYSMIKCATSCDPLQYKGYGCYCGFLGSGRALDGIDRCC
KAHDYCYGNANCFFYTEYLVPYLWKCYRGKPLCALDNGEWGGVNSCATKLCECDRALSKC
LRQYYCPRKRAVCSSNPFRLLQNLVMVF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g996.t1 | CDD | cd00125 | PLA2c | 378 | 490 | 1.05908E-43 |
| 11 | g996.t1 | Coils | Coil | Coil | 210 | 230 | - |
| 10 | g996.t1 | Gene3D | G3DSA:1.20.90.10 | Phospholipase A2 | 371 | 497 | 1.2E-30 |
| 2 | g996.t1 | PANTHER | PTHR11716:SF47 | PHOSPHOLIPASE A(2) | 356 | 499 | 9.1E-52 |
| 3 | g996.t1 | PANTHER | PTHR11716 | PHOSPHOLIPASE A2 FAMILY MEMBER | 356 | 499 | 9.1E-52 |
| 7 | g996.t1 | PRINTS | PR00389 | Phospholipase A2 signature | 379 | 389 | 2.3E-16 |
| 6 | g996.t1 | PRINTS | PR00389 | Phospholipase A2 signature | 393 | 411 | 2.3E-16 |
| 4 | g996.t1 | PRINTS | PR00389 | Phospholipase A2 signature | 412 | 430 | 2.3E-16 |
| 5 | g996.t1 | PRINTS | PR00389 | Phospholipase A2 signature | 466 | 482 | 2.3E-16 |
| 1 | g996.t1 | Pfam | PF00068 | Phospholipase A2 | 380 | 484 | 4.7E-23 |
| 13 | g996.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 14 | g996.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 9 | - |
| 15 | g996.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 10 | 18 | - |
| 16 | g996.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 23 | - |
| 12 | g996.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 508 | - |
| 19 | g996.t1 | ProSitePatterns | PS00118 | Phospholipase A2 histidine active site. | 419 | 426 | - |
| 20 | g996.t1 | ProSitePatterns | PS00119 | Phospholipase A2 aspartic acid active site. | 470 | 480 | - |
| 18 | g996.t1 | SMART | SM00085 | PA-fin | 378 | 499 | 8.1E-18 |
| 8 | g996.t1 | SUPERFAMILY | SSF48619 | Phospholipase A2, PLA2 | 379 | 496 | 8.6E-28 |
| 9 | g996.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 26 | - |
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: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.
