Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t4 TTS g8749.t4 32790268 32790268
chr_2 g8749 g8749.t4 isoform g8749.t4 32790384 32791636
chr_2 g8749 g8749.t4 exon g8749.t4.exon1 32790384 32790928
chr_2 g8749 g8749.t4 cds g8749.t4.CDS1 32790579 32790928
chr_2 g8749 g8749.t4 exon g8749.t4.exon2 32791015 32791189
chr_2 g8749 g8749.t4 cds g8749.t4.CDS2 32791015 32791189
chr_2 g8749 g8749.t4 exon g8749.t4.exon3 32791246 32791397
chr_2 g8749 g8749.t4 cds g8749.t4.CDS3 32791246 32791397
chr_2 g8749 g8749.t4 exon g8749.t4.exon4 32791460 32791636
chr_2 g8749 g8749.t4 cds g8749.t4.CDS4 32791460 32791634
chr_2 g8749 g8749.t4 TSS g8749.t4 32791642 32791642

Sequences

>g8749.t4 Gene=g8749 Length=1049
AGATGACAAACAGGCCCAATCGGTCAATACAAGCAATACAAGAAGAAGCGACTGAAAACA
GCCCATTAAACAATCGACCTGTATCTACAATTGATAATTCAAACAAATTCACAATGGATG
CTGAAACAAAACGAATATTGACAAAAATTGCTATTGATGTAATTCTTTTAGGCTCTGTTG
GCTTTCCTGTTCTGGCATATTTCCTCTTTGGAGTTCCTTATGAACGTGGCTTTTTCTGTG
ATGATCAATCTTTGATGTATCCGTTTCATGATTCAACTGTAACAAGTGCAATGTTATATA
GTTTTGGTTTTGGTATACCTACAATTTGCATTCTCATAATTGAATACTTAAGATGGAGGC
TTAATATGGAACCTGAAAGAGAACTGAAACTTTTTGGTCGTTCAATCCCCGTTTGGGTTA
TAAATGCATACAGATTTATAGGCATTCTTCTCTTTGGAGCTGCTTGCAGTCAATTGATAA
CTGATATTGCAAAATATACAATTGGTCGATTACGTCCTCATTTCTTAAGTGTTTGCCAAC
CGATTATGCCTGATGGAACTAATTGCTCGGATATAATAAATCACAACAAATACATCATTG
ATTTCACATGCAGTAATGAAAATGCTTCAAAAAGGAAGTTAAAAGAAATGAGATTGAGTT
TTCTAAGTGGACATAGTTCATTTAGTATGTACACGATGGTCTATGCTGCTCTTTATATTC
ATAGCCGCATGGAATGGAAAGGATCAAAGTTATTTAAACATTTTCTTCAATTTATATTTA
TTGCATTGGCATGGTATACAGCATTATCAAGAGTCAGCAATTATAAGCATCACTGTAAGT
ATTTCAAAGCATAAAAGGTTTAGGTTGATGGTTAACATTTTTATTTTTCGAAAGGGTCCG
ATGTGATGGCGGGTTCCATTCAAGGTCTATTTGTTTCATTGTTAATCGTCTTCGGTGTTT
CTGGTCTATTCAAAAATAAATTCAAAATTGTTGAACAACCAAAAGGATCACGTTATGAGT
TAAACTCGCATAGTACCAGAAGCAATTAG

>g8749.t4 Gene=g8749 Length=283
MTNRPNRSIQAIQEEATENSPLNNRPVSTIDNSNKFTMDAETKRILTKIAIDVILLGSVG
FPVLAYFLFGVPYERGFFCDDQSLMYPFHDSTVTSAMLYSFGFGIPTICILIIEYLRWRL
NMEPERELKLFGRSIPVWVINAYRFIGILLFGAACSQLITDIAKYTIGRLRPHFLSVCQP
IMPDGTNCSDIINHNKYIIDFTCSNENASKRKLKEMRLSFLSGHSSFSMYTMVYAALYIH
SRMEWKGSKLFKHFLQFIFIALAWYTALSRVSNYKHHCKYFKA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g8749.t4 CDD cd03384 PAP2_wunen 142 278 9.56156E-60
5 g8749.t4 Gene3D G3DSA:1.20.144.10 - 53 279 2.2E-22
2 g8749.t4 PANTHER PTHR10165 LIPID PHOSPHATE PHOSPHATASE 44 277 3.9E-85
3 g8749.t4 PANTHER PTHR10165:SF173 FI04477P-RELATED 44 277 3.9E-85
1 g8749.t4 Pfam PF01569 PAP2 superfamily 148 277 5.7E-18
7 g8749.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 52 -
13 g8749.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 53 73 -
10 g8749.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 74 92 -
16 g8749.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 93 116 -
6 g8749.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 117 136 -
15 g8749.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 137 159 -
11 g8749.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 160 217 -
14 g8749.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 218 238 -
8 g8749.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 239 249 -
12 g8749.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 250 267 -
9 g8749.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 268 283 -
22 g8749.t4 SMART SM00014 acid_phosph_2 146 282 4.4E-21
4 g8749.t4 SUPERFAMILY SSF48317 Acid phosphatase/Vanadium-dependent haloperoxidase 49 277 2.62E-18
19 g8749.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 49 71 -
21 g8749.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 91 113 -
20 g8749.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 218 240 -
18 g8749.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 255 274 -

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