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.t7 TSS g5318.t7 8706373 8706373
chr_2 g5318 g5318.t7 isoform g5318.t7 8706376 8707617
chr_2 g5318 g5318.t7 exon g5318.t7.exon1 8706376 8706390
chr_2 g5318 g5318.t7 exon g5318.t7.exon2 8706428 8706478
chr_2 g5318 g5318.t7 exon g5318.t7.exon3 8706532 8706683
chr_2 g5318 g5318.t7 cds g5318.t7.CDS1 8706609 8706683
chr_2 g5318 g5318.t7 exon g5318.t7.exon4 8706747 8706965
chr_2 g5318 g5318.t7 cds g5318.t7.CDS2 8706747 8706965
chr_2 g5318 g5318.t7 exon g5318.t7.exon5 8707130 8707309
chr_2 g5318 g5318.t7 cds g5318.t7.CDS3 8707130 8707309
chr_2 g5318 g5318.t7 exon g5318.t7.exon6 8707384 8707617
chr_2 g5318 g5318.t7 cds g5318.t7.CDS4 8707384 8707617
chr_2 g5318 g5318.t7 TTS g5318.t7 8707663 8707663

Sequences

>g5318.t7 Gene=g5318 Length=851
TATCCATTCGAACGTCGAGTGTGAGTGCATTTAAGATTGCAGTTGACTTTGTGCTATTAG
CAATACCTGGCCTCATTGCTTTAATTTTGAATCTCTTTGTGACTCCATTTCAACGAAATT
TCTTCTGTAATGATTTGTCAATTATGTATCCATATAAACCTGATACAATCACTACATTGC
AACTTGCTCTTGTTGGTGTAATTGTGAGCGTCGTATTTGTATTTATCGTGGAATTAATTC
ATAAGTTTAATAATTCATATAAATATGATGATGACGATGATAAAGAGAGCAAAATTCTGT
ATAAATGGAACATTTCACCATTCATTCAGAATTTATATCAGTATATTGGCCTCCTGTTGT
TTGGAATATCAATCAATCAGTTTATAACTGATGGCACAAAATTTGTTGTTGGACGTTTAA
GACCACACTTTATGGATGTCTGTCGTCCAGTTTTATCAAATGGATTAACATGCAAAGACT
TAGATAACTGGAACACTTACATCTCTGACTACACTTGCACTAATCAGGATGTTAGTGATT
GGACTCTCACAAATGCTCGAATTTCATTTCCTTCTGGTCATGCGAGTTTCTCATTCTATT
GTTCATTTTTCTGTGCATTTTATATTCAATCGCGAATGAAATTTGGAGGGTCAAAGCTTT
TGAAACATTTTATTCAATTAGTGTTTGTCACAGCTGCTCTTTATACTGGCTTATCACGAA
TTACGGACTATAAGCATCATCCAACTGACGTAATAGCTGGCAGTATTTTAGGAATTCTTA
TTGCATTTGTTGTTTGCTTTTATTTTTCTGATTTATTTAAGAGAAAAATTAATAATGTCT
TACCGAGATGA

>g5318.t7 Gene=g5318 Length=235
MYPYKPDTITTLQLALVGVIVSVVFVFIVELIHKFNNSYKYDDDDDKESKILYKWNISPF
IQNLYQYIGLLLFGISINQFITDGTKFVVGRLRPHFMDVCRPVLSNGLTCKDLDNWNTYI
SDYTCTNQDVSDWTLTNARISFPSGHASFSFYCSFFCAFYIQSRMKFGGSKLLKHFIQLV
FVTAALYTGLSRITDYKHHPTDVIAGSILGILIAFVVCFYFSDLFKRKINNVLPR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g5318.t7 CDD cd03384 PAP2_wunen 64 218 2.43795E-58
5 g5318.t7 Gene3D G3DSA:1.20.144.10 - 9 233 1.5E-38
2 g5318.t7 PANTHER PTHR10165 LIPID PHOSPHATE PHOSPHATASE 1 228 4.9E-66
3 g5318.t7 PANTHER PTHR10165:SF173 FI04477P-RELATED 1 228 4.9E-66
1 g5318.t7 Pfam PF01569 PAP2 superfamily 70 222 2.4E-27
9 g5318.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
14 g5318.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 32 -
6 g5318.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 33 63 -
12 g5318.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 64 81 -
11 g5318.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 82 139 -
13 g5318.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 140 161 -
7 g5318.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 162 172 -
15 g5318.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 173 191 -
10 g5318.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 192 202 -
16 g5318.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 203 225 -
8 g5318.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 226 235 -
23 g5318.t7 SMART SM00014 acid_phosph_2 68 218 7.7E-38
4 g5318.t7 SUPERFAMILY SSF48317 Acid phosphatase/Vanadium-dependent haloperoxidase 64 221 9.94E-28
22 g5318.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 32 -
19 g5318.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 60 82 -
20 g5318.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 140 162 -
18 g5318.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 175 193 -
21 g5318.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 203 225 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5318/g5318.t7; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5318.t7.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