Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Glycerol-3-phosphate 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_4 g17458 g17458.t1 TSS g17458.t1 13586560 13586560
chr_4 g17458 g17458.t1 isoform g17458.t1 13586644 13587891
chr_4 g17458 g17458.t1 exon g17458.t1.exon1 13586644 13586740
chr_4 g17458 g17458.t1 cds g17458.t1.CDS1 13586644 13586740
chr_4 g17458 g17458.t1 exon g17458.t1.exon2 13586989 13587501
chr_4 g17458 g17458.t1 cds g17458.t1.CDS2 13586989 13587501
chr_4 g17458 g17458.t1 exon g17458.t1.exon3 13587593 13587891
chr_4 g17458 g17458.t1 cds g17458.t1.CDS3 13587593 13587891
chr_4 g17458 g17458.t1 TTS g17458.t1 13588094 13588094

Sequences

>g17458.t1 Gene=g17458 Length=909
ATGAATTATAAAATTCCTGTGAACTTATCAAATTACCCAAAAGAAAGTCTACAAAAGTTT
TTTGATGATTTTGATGTAATTTTTACTGATTGTGACGGTGTTTTAATAAAAGAAAATTCA
GTCATTGATTCATCAAATCTTCTCATCAATAAATTTCTCGAAAATGGAAAGAAAGTTTTT
ATGGTTTCCAACAATAATCAAACCACTCGTGATGATTTATTAAAAAAATGTCAGAATCTA
AATTTCAATTTCACAATCGATAATATTTTTACATCATCTTCCATCACTGGAATGTATTTG
AAATCTTTGAATTTTAATAAAAAAGCTTATGTGATTGGTTCAGAAGAATTAGGAGAAGAA
TTGACAAAATTTGGTATTGAACATATTGGAATTGGAAGAGATGACATGAGTGACACTTAT
GGTGAATATATGATGAACAATTACAAACTTTATGAAGATGTTGGTGCTGTCATTGTGGGA
CTTGATAAATTTTTCAACATTCCTAAAATGCTCAAAGCAATGAATTATTTAAAAAATCCT
GAAATTTTATTTTTAGCAACAAATGTTGATGTGAGATCAGAATTTCCGAATTTGATTTTT
CCTGATGCAGGTCCAATAGTAGCTTCAATAGAAAAAGCTTCATATAGAAAAGCAACAGTA
ATTGGAAAACCTTCATCAATTCTATTTGATTTATTAAAGCTCAAAAGTGATAAAGAAAGA
ATTTTAATGATTGGTGACAGATTGAGTGTTGATATTGCTTTTGGAAAAAATTCCGGAATT
AAAACAATGCTTGTTGAAACTGGTGATGATAAAATGGAAAATGTTGGAGAAATTTTGAGA
AAGATTGAGGAAAATGAAGAAAATCTAATACCTGATTATGTTGTAAAAAGTTTAGGATTA
TTTTTGTAA

>g17458.t1 Gene=g17458 Length=302
MNYKIPVNLSNYPKESLQKFFDDFDVIFTDCDGVLIKENSVIDSSNLLINKFLENGKKVF
MVSNNNQTTRDDLLKKCQNLNFNFTIDNIFTSSSITGMYLKSLNFNKKAYVIGSEELGEE
LTKFGIEHIGIGRDDMSDTYGEYMMNNYKLYEDVGAVIVGLDKFFNIPKMLKAMNYLKNP
EILFLATNVDVRSEFPNLIFPDAGPIVASIEKASYRKATVIGKPSSILFDLLKLKSDKER
ILMIGDRLSVDIAFGKNSGIKTMLVETGDDKMENVGEILRKIEENEENLIPDYVVKSLGL
FL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g17458.t1 Gene3D G3DSA:3.40.50.1000 - 26 299 0
6 g17458.t1 Gene3D G3DSA:3.40.50.1000 - 92 222 0
3 g17458.t1 PANTHER PTHR19288 4-NITROPHENYLPHOSPHATASE-RELATED 18 299 0
4 g17458.t1 PANTHER PTHR19288:SF75 FI11325P-RELATED 18 299 0
10 g17458.t1 PIRSF PIRSF000915 PGP-type_phosphatase 2 302 0
1 g17458.t1 Pfam PF13344 Haloacid dehalogenase-like hydrolase 27 127 0
2 g17458.t1 Pfam PF13242 HAD-hyrolase-like 220 298 0
11 g17458.t1 SFLD SFLDG01129 C1.5: HAD, Beta-PGM, Phosphatase Like 25 298 0
12 g17458.t1 SFLD SFLDS00003 Haloacid Dehalogenase 25 298 0
5 g17458.t1 SUPERFAMILY SSF56784 HAD-like 23 298 0
8 g17458.t1 TIGRFAM TIGR01452 PGP_euk: phosphoglycolate/pyridoxal phosphate phosphatase family 26 299 0
9 g17458.t1 TIGRFAM TIGR01460 HAD-SF-IIA: HAD hydrolase, family IIA 28 268 0

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:0016791 phosphatase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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