Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Putative phosphatidate phosphatase.

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 g8749 g8749.t3 TTS g8749.t3 32790268 32790268
chr_2 g8749 g8749.t3 isoform g8749.t3 32790384 32791039
chr_2 g8749 g8749.t3 exon g8749.t3.exon1 32790384 32790538
chr_2 g8749 g8749.t3 cds g8749.t3.CDS1 32790384 32790538
chr_2 g8749 g8749.t3 exon g8749.t3.exon2 32790599 32790928
chr_2 g8749 g8749.t3 cds g8749.t3.CDS2 32790599 32790887
chr_2 g8749 g8749.t3 exon g8749.t3.exon3 32791015 32791039
chr_2 g8749 g8749.t3 TSS g8749.t3 32791642 32791642

Sequences

>g8749.t3 Gene=g8749 Length=510
ACTGATATTGCAAAATATACAATTGGTCGATTACGTCCTCATTTCTTAAGTGTTTGCCAA
CCGATTATGCCTGATGGAACTAATTGCTCGGATATAATAAATCACAACAAATACATCATT
GATTTCACATGCAGTAATGAAAATGCTTCAAAAAGGAAGTTAAAAGAAATGAGATTGAGT
TTTCTAAGTGGACATAGTTCATTTAGTATGTACACGATGGTCTATGCTGCTCTTTATATT
CATAGCCGCATGGAATGGAAAGGATCAAAGTTATTTAAACATTTTCTTCAATTTATATTT
ATTGCATTGGCATGGTATACAGCATTATCAAGAGTCAGCAATTATAAGCATCACTGGTCC
GATGTGATGGCGGGTTCCATTCAAGGTCTATTTGTTTCATTGTTAATCGTCTTCGGTGTT
TCTGGTCTATTCAAAAATAAATTCAAAATTGTTGAACAACCAAAAGGATCACGTTATGAG
TTAAACTCGCATAGTACCAGAAGCAATTAG

>g8749.t3 Gene=g8749 Length=147
MPDGTNCSDIINHNKYIIDFTCSNENASKRKLKEMRLSFLSGHSSFSMYTMVYAALYIHS
RMEWKGSKLFKHFLQFIFIALAWYTALSRVSNYKHHWSDVMAGSIQGLFVSLLIVFGVSG
LFKNKFKIVEQPKGSRYELNSHSTRSN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g8749.t3 CDD cd03384 PAP2_wunen 1 115 3.53933E-46
5 g8749.t3 Gene3D G3DSA:1.20.144.10 - 3 145 4.7E-23
2 g8749.t3 PANTHER PTHR10165 LIPID PHOSPHATE PHOSPHATASE 2 125 4.1E-45
3 g8749.t3 PANTHER PTHR10165:SF173 FI04477P-RELATED 2 125 4.1E-45
1 g8749.t3 Pfam PF01569 PAP2 superfamily 26 116 7.4E-19
9 g8749.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 36 -
12 g8749.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 37 57 -
6 g8749.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 58 68 -
11 g8749.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 69 88 -
8 g8749.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 89 99 -
10 g8749.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 100 122 -
7 g8749.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 123 147 -
17 g8749.t3 SMART SM00014 acid_phosph_2 8 115 2.9E-14
4 g8749.t3 SUPERFAMILY SSF48317 Acid phosphatase/Vanadium-dependent haloperoxidase 34 115 2.75E-16
15 g8749.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 37 59 -
16 g8749.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 74 93 -
14 g8749.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 100 122 -

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:0042577 lipid phosphatase activity MF
GO:0006644 phospholipid 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