Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Phospholipase A2 group XV.

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_2 g4399 g4399.t9 TSS g4399.t9 1970942 1970942
chr_2 g4399 g4399.t9 isoform g4399.t9 1971200 1972936
chr_2 g4399 g4399.t9 exon g4399.t9.exon1 1971200 1971523
chr_2 g4399 g4399.t9 cds g4399.t9.CDS1 1971267 1971523
chr_2 g4399 g4399.t9 exon g4399.t9.exon2 1971582 1972936
chr_2 g4399 g4399.t9 cds g4399.t9.CDS2 1971582 1971798
chr_2 g4399 g4399.t9 TTS g4399.t9 1972983 1972983

Sequences

>g4399.t9 Gene=g4399 Length=1679
TGTAAAGACAGTAAAAGTTTTTGCTGTAGGAGATGACCTCGGTTCACTCGGGTTGTTTGC
TAGTGAAATGAGAGAGGCACAAATTTCTATGGCTTCACTTTCATTCTTACTTCCGTTTCC
GACTTTCTGGAAGCCAAATGAAGTGCTTGTGACAACACGCAAAAGAAATTACACTCACAG
TCAATTGAATGAATTTTTTGATGATCTGGGCTATCCTCAAGGTTGGGAAATGAGAAAAGA
TAATTTGAAATTTGTTGAAAATTTCGCTGCACCAAATGTTGAAATACATTGCCTTTATTC
AACAAAAATGCCAACTATTGAACAATTGCATTATAAAACAGATGACTTGTCGGGTTCACC
ATCATTATTGTATGGTAACGGAGATGGCTCTGTTAATATTAGAAGCTTAGAAGGCTGCAC
ATATTGGCGAAATTTACAGAAGCAACCTATCACAACTCTTGAAATACCAAATACTGAACA
TTTTGCACTTTTACAACATCCCAGAATTGTCTCTTATATTTTGGACGTTTTGGTCAATTA
ATTTTAAGATCTGTTATGACTCTATTCAATGTGATGAAACGAATTTCGAAAAAAATTGAT
ATTATCAGACTTTTATCCCAATACCAAAATTGAAATTATCAACAAATTATTAAATTTATT
ATAAGCTTAAAATTTATTTCATTCAATATCTTTAAATATTTACAAAAAATTTCTAACAAT
AACTAACTAAATTTTTAAGTTTTCTTCTCTTTCATACAAATTGGTCTCTTTCTCTCATTC
TTTCATACAGTCATTAACTTTTTTTATTCTTTAAAAAAATACACATTACTAAATACTTTT
TGGACAAAATAGCAAATACGACTGGAAATTATAATGAGCGTAAAAATAATGTTTTCTTCT
ATCTCACGCTGATTCCATTTATTGTAATGATATTTCCTCTATTCGGTTCTGGCTCATACA
TTTCTTCATTCACTCTCATTTCATATGGTTGATCGTAAATGGTCGTCTCGTTGGGTATTT
GATCGTAAATATTTTCTGACCTAAGGCTGTTAACACTACTTAAATTACTATTATTTATGA
CTGGTGATTGAAATGTATTAAATGTTGCTGATCTATTATGTAAATCAAAGTTTGCACGCT
GATTCTCGATACTCGAGTATGACATCACAGCAGCATTTTGATCTTCTTTTCGCTCAGCTG
CTTGCACATTTTCTGAATTCTTTACTGGTCTCGATTTGTTTCTAAAATTTGATATACTGG
CGCTGAGAAATTGTTTTCTTTAATCAAATATTTACATCAAGCAAATAATCAAAAAAGTTT
TTTTACTTACCGATGAAGGAACACAATGAGAATAAAAATAAGCAATATAACAATAACAGC
TGCTGAAATTGCAACTCCAGTTCCAAAATTGTCTTCATTTTGAGCATCATTCACAGCCAC
TAAAATTTTTTTTTTAAAAAAATTAGAATCAATTAAAAATTAATATCATTATTACTCACA
TTCACATCGTGGTTCATCACCACTCCATTTTCCATCTTCCATACACTTTCTCAAATATGG
GCCAATTCGATTATAATTTGGTATGCAATGATATTCTGCTGATCCTCCATAGGTTGTTAT
ATCATTAACAATTATCACACGACCATTTTCAACTTCATTTGGTCGTTCGCAATCAACAG

>g4399.t9 Gene=g4399 Length=157
MREAQISMASLSFLLPFPTFWKPNEVLVTTRKRNYTHSQLNEFFDDLGYPQGWEMRKDNL
KFVENFAAPNVEIHCLYSTKMPTIEQLHYKTDDLSGSPSLLYGNGDGSVNIRSLEGCTYW
RNLQKQPITTLEIPNTEHFALLQHPRIVSYILDVLVN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g4399.t9 Gene3D G3DSA:3.40.50.1820 - 31 157 0
2 g4399.t9 PANTHER PTHR11440:SF47 GROUP XV PHOSPHOLIPASE A2 2 156 0
3 g4399.t9 PANTHER PTHR11440 LECITHIN-CHOLESTEROL ACYLTRANSFERASE-RELATED 2 156 0
1 g4399.t9 Pfam PF02450 Lecithin:cholesterol acyltransferase 67 142 0
4 g4399.t9 SUPERFAMILY SSF53474 alpha/beta-Hydrolases 9 151 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

## Warning: Removed 1 row(s) containing missing values (geom_path).

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0008374 O-acyltransferase activity MF
GO:0006629 lipid metabolic process BP

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.

Raw TPM values