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 g5318 g5318.t15 TSS g5318.t15 8706373 8706373
chr_2 g5318 g5318.t15 isoform g5318.t15 8706418 8707617
chr_2 g5318 g5318.t15 exon g5318.t15.exon1 8706418 8706478
chr_2 g5318 g5318.t15 exon g5318.t15.exon2 8706532 8706687
chr_2 g5318 g5318.t15 exon g5318.t15.exon3 8706747 8706965
chr_2 g5318 g5318.t15 cds g5318.t15.CDS1 8706960 8706965
chr_2 g5318 g5318.t15 exon g5318.t15.exon4 8707130 8707309
chr_2 g5318 g5318.t15 cds g5318.t15.CDS2 8707130 8707309
chr_2 g5318 g5318.t15 exon g5318.t15.exon5 8707384 8707617
chr_2 g5318 g5318.t15 cds g5318.t15.CDS3 8707384 8707617
chr_2 g5318 g5318.t15 TTS g5318.t15 8707663 8707663

Sequences

>g5318.t15 Gene=g5318 Length=850
ATGGAAACATCGAGTGTGAGTGCATTTAAGATTGCAGTTGACTTTGTGCTATTAGCAATA
CCTGGCCTCATTGCTTTAATTTTGAATCTCTTTGTGACTCCATTTCAACGAAATTTCTTC
TGTAATGATTTGTCAATTATGTATCCATATAAACCTGATACAATCACTACATTGCAACTT
GCTCTTGTTGGTGTAATTGTGAGCGTCGTATTTGTAAGTATTTATCGTGGAATTAATTCA
TAAGTTTAATAATTCATATAAATATGATGATGACGATGATAAAGAGAGCAAAATTCTGTA
TAAATGGAACATTTCACCATTCATTCAGAATTTATATCAGTATATTGGCCTCCTGTTGTT
TGGAATATCAATCAATCAGTTTATAACTGATGGCACAAAATTTGTTGTTGGACGTTTAAG
ACCACACTTTATGGATGTCTGTCGTCCAGTTTTATCAAATGGATTAACATGCAAAGACTT
AGATAACTGGAACACTTACATCTCTGACTACACTTGCACTAATCAGGATGTTAGTGATTG
GACTCTCACAAATGCTCGAATTTCATTTCCTTCTGGTCATGCGAGTTTCTCATTCTATTG
TTCATTTTTCTGTGCATTTTATATTCAATCGCGAATGAAATTTGGAGGGTCAAAGCTTTT
GAAACATTTTATTCAATTAGTGTTTGTCACAGCTGCTCTTTATACTGGCTTATCACGAAT
TACGGACTATAAGCATCATCCAACTGACGTAATAGCTGGCAGTATTTTAGGAATTCTTAT
TGCATTTGTTGTTTGCTTTTATTTTTCTGATTTATTTAAGAGAAAAATTAATAATGTCTT
ACCGAGATGA

>g5318.t15 Gene=g5318 Length=139
MDVCRPVLSNGLTCKDLDNWNTYISDYTCTNQDVSDWTLTNARISFPSGHASFSFYCSFF
CAFYIQSRMKFGGSKLLKHFIQLVFVTAALYTGLSRITDYKHHPTDVIAGSILGILIAFV
VCFYFSDLFKRKINNVLPR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g5318.t15 Gene3D G3DSA:1.20.144.10 - 5 137 2.7E-29
2 g5318.t15 PANTHER PTHR10165 LIPID PHOSPHATE PHOSPHATASE 1 132 3.1E-43
3 g5318.t15 PANTHER PTHR10165:SF173 FI04477P-RELATED 1 132 3.1E-43
1 g5318.t15 Pfam PF01569 PAP2 superfamily 22 126 1.9E-21
13 g5318.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 43 -
16 g5318.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 44 65 -
11 g5318.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 66 76 -
15 g5318.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 77 95 -
12 g5318.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 96 106 -
14 g5318.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
10 g5318.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 130 139 -
8 g5318.t15 SMART SM00014 acid_phosph_2 7 122 2.5E-19
7 g5318.t15 SUPERFAMILY SSF48317 Acid phosphatase/Vanadium-dependent haloperoxidase 37 125 3.66E-21
6 g5318.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 44 66 -
5 g5318.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 79 97 -
4 g5318.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5318/g5318.t15; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5318.t15.fa.iupred3.txt does not exist

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. There were no conditions that were differentially expressed