General information for g10200.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10200 is located on chr_1: 8197597..8199312 (+ 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 | g10200 | g10200.t2 | isoform | g10200.t2 | 8196377 | 8198356 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon1 | 8196377 | 8196422 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS1 | 8196377 | 8196422 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon2 | 8196625 | 8196676 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS2 | 8196625 | 8196676 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon3 | 8196776 | 8196852 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS3 | 8196776 | 8196852 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon4 | 8197044 | 8197057 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS4 | 8197044 | 8197057 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon5 | 8197172 | 8197181 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS5 | 8197172 | 8197181 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon6 | 8197248 | 8197382 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS6 | 8197248 | 8197382 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon7 | 8197543 | 8197584 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS7 | 8197543 | 8197584 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon8 | 8197657 | 8197675 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS8 | 8197657 | 8197675 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon9 | 8197735 | 8197956 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS9 | 8197735 | 8197956 |
| chr_1 | g10200 | g10200.t2 | exon | g10200.t2.exon10 | 8198056 | 8198356 |
| chr_1 | g10200 | g10200.t2 | cds | g10200.t2.CDS10 | 8198056 | 8198356 |
| chr_1 | g10200 | g10200.t2 | TTS | g10200.t2 | 8199028 | 8199028 |
| chr_1 | g10200 | g10200.t2 | TSS | g10200.t2 | NA | NA |
Sequences
>g10200.t2 Gene=g10200 Length=918
ATGATTGAACTATCGATTCGTAAACCTTATTGCCAAATTCATACTGATCGTGGATCAATT
CAGCATGTGGTTTTATCGATGGATTCACTTAAAGTTAGACAAGTGCCAATTGAGACGATA
CAAACGCTCGAGAATGTATGTCTTGAAGGAAATCAGCTGCGAACAGAAATTCAAGGCGGT
TTAAGCTTTATTTATCCAGGAACGGTATGTTTATTATTTTCTTCATACGGTTTTATACAT
TATACTAAATTTTCTGCTTATCATTTCCTTCTTCTTGATGGTGAAGTTATGGTGTGGTCC
AGGTTAGTATATCAAACTGAAATATCTTACGAAGGCACTATTGCAAAAAATTATTCTGAT
CTTGGACGACATGCCGAGGAAGATAAGTGCTGCAGAGCTCATGACAATTGTTATCCTCAA
ATTGGACCTGGAGAATGCTTGAAAAGTATTTGTAATAAAGGAACTTTCACAAGACTTCAT
TGTGATTGTGATGAAAAATTCCGAAGATGCTTAAGTACTCTGAACACAGACATAGGAAAC
ACGCTTGGTGCCGCTTTCTTTAATGCAGTTCAAGTTACTTGTTTTGATTTTAGACGACCA
TGTAGTTCGCATCAAAGGTTTCAAGATTGTGAACTGGAATTTTTTGAGGAAAAACCATTC
CAATTTTCTCATAAACAGCCATTTATTGAACATTCTGAAAAACTTATAACTGCTGAAGCA
AGAAACTATTTACCAAAACAACAGCAACCATCATCAAGTAGATTTTTAGATACATATTCA
CTTCAACTTTTTTTAAATGCGATTTACGATAATTTTATTTATCGTCCTTTTCGCACATTT
GCCAACTTTTTTATCGTTACGAAAACAATATATTTTGCACCACAAGCGAGAATTGATGAA
AATTTTTTAATTCCATAA
>g10200.t2 Gene=g10200 Length=305
MIELSIRKPYCQIHTDRGSIQHVVLSMDSLKVRQVPIETIQTLENVCLEGNQLRTEIQGG
LSFIYPGTVCLLFSSYGFIHYTKFSAYHFLLLDGEVMVWSRLVYQTEISYEGTIAKNYSD
LGRHAEEDKCCRAHDNCYPQIGPGECLKSICNKGTFTRLHCDCDEKFRRCLSTLNTDIGN
TLGAAFFNAVQVTCFDFRRPCSSHQRFQDCELEFFEEKPFQFSHKQPFIEHSEKLITAEA
RNYLPKQQQPSSSRFLDTYSLQLFLNAIYDNFIYRPFRTFANFFIVTKTIYFAPQARIDE
NFLIP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10200.t2 | Gene3D | G3DSA:1.20.90.10 | Phospholipase A2 | 103 | 228 | 2.3E-27 |
| 2 | g10200.t2 | PANTHER | PTHR12253:SF34 | RH14732P | 112 | 211 | 1.7E-42 |
| 3 | g10200.t2 | PANTHER | PTHR12253 | RH14732P | 112 | 211 | 1.7E-42 |
| 1 | g10200.t2 | Pfam | PF05826 | Phospholipase A2 | 106 | 197 | 2.8E-26 |
| 6 | g10200.t2 | ProSitePatterns | PS00118 | Phospholipase A2 histidine active site. | 130 | 137 | - |
| 5 | g10200.t2 | SUPERFAMILY | SSF48619 | Phospholipase A2, PLA2 | 112 | 208 | 1.84E-24 |
| 4 | g10200.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 60 | 82 | - |
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. There were no conditions that were differentially expressed