Gene loci information

Transcript annotation

  • This transcript has been annotated as Inositol polyphosphate 1-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_3 g501 g501.t1 isoform g501.t1 3811186 3812274
chr_3 g501 g501.t1 exon g501.t1.exon1 3811186 3812274
chr_3 g501 g501.t1 cds g501.t1.CDS1 3811186 3812274
chr_3 g501 g501.t1 TTS g501.t1 3812436 3812436
chr_3 g501 g501.t1 TSS g501.t1 NA NA

Sequences

>g501.t1 Gene=g501 Length=1089
ATGAAAGTAAAAGAACTGTTGTCAGTGCTTATAAATTCATCAGAAAAAGCAGCTCGAATA
GCAAGATTATGCAGAAGTAATCAAGATTTGTTTAGTTTGTTAATTGAAGAGAAAACAGGA
CAGGATAAAAATGAAAGATTTTTCCAAGATTTTAAAACATTAGCTGATGTTATCATTCAA
GAGCTTATTAAAAGCGATGTTGGTATGCTTTTTCCTAAATTAAAAGATAATATTAAAGGT
GAAGAAAGTAATAAGTTTGAAAATACATTGGGTGAACAAATTTATGTCGAAATTGAAAAT
GAAGAAAAAACTTTTTCAATTCTCATGAGAATTCTTGATCAAAATGAATCGATTGCAAAA
GAATTAACTAATGAAATTCACAGAAAAGTGATTGTTGAAGAAGAATTCAATTTCTCTGAC
TCTGATCTCAATCAAGAAATCGATGAAAATAACATATCAATCTGGATTGATCCAATTGAT
GCAACACAAGAATATATTTCAGCTAATGAACAGCAATCGCCTTTTAAAAATATTATGACT
TCTGGCTTGCAATGTGCAACAGTATTAATTGGAACCTATTTAAAATCAAGTGGAGAACCA
TTGCTTGGAATTATCAATCAGCCTTTTGCTGTCCGTCAAGATAATGGCGAATATAAGAGT
AAAATTTTCTATGGAATCTCATTAAACGATTTAAAATTCTCAAATGTTATACATGAAAAT
AACCCATTAAGTACTTCTGAGAAGAAGTTAGCAATAATTTCTTCATCAGAAGCTTTTAAA
TCAAATTTGTTTGAATGTTGTGTAGCAGCTGGCGCAGGATATAAAGCACTTAAAGTCATT
CAAAAGCATGCTGATATTTATTATCTTTCAAAAAACTCGACATTTAAATGGGATACTTGT
GCAGCACAAGCTATTTTGAGATCTTTTGGAGGAGATATTGTTGAATTGAATTCTAGTGTC
AAATTGAAAAAGTCAATTCCTTTGAGTTATAAAGACGATGAGGAAAAGTGCAATCAAAAT
GGTTTGATTGCTTTCATTGATATTGAAGATTTCAATAAACTTGTTGATGAAATGCATGCA
AATTTCTAA

>g501.t1 Gene=g501 Length=362
MKVKELLSVLINSSEKAARIARLCRSNQDLFSLLIEEKTGQDKNERFFQDFKTLADVIIQ
ELIKSDVGMLFPKLKDNIKGEESNKFENTLGEQIYVEIENEEKTFSILMRILDQNESIAK
ELTNEIHRKVIVEEEFNFSDSDLNQEIDENNISIWIDPIDATQEYISANEQQSPFKNIMT
SGLQCATVLIGTYLKSSGEPLLGIINQPFAVRQDNGEYKSKIFYGISLNDLKFSNVIHEN
NPLSTSEKKLAIISSSEAFKSNLFECCVAAGAGYKALKVIQKHADIYYLSKNSTFKWDTC
AAQAILRSFGGDIVELNSSVKLKKSIPLSYKDDEEKCNQNGLIAFIDIEDFNKLVDEMHA
NF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g501.t1 Gene3D G3DSA:3.30.540.10 - 6 227 3.4E-84
7 g501.t1 Gene3D G3DSA:4.10.460.10 - 83 128 3.4E-84
8 g501.t1 Gene3D G3DSA:3.40.190.80 - 236 362 1.4E-28
2 g501.t1 PANTHER PTHR43028:SF3 INOSITOL POLYPHOSPHATE 1-PHOSPHATASE 4 359 1.9E-112
3 g501.t1 PANTHER PTHR43028 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 4 359 1.9E-112
1 g501.t1 Pfam PF00459 Inositol monophosphatase family 63 327 8.8E-27
5 g501.t1 ProSitePatterns PS00630 Inositol monophosphatase family signature 2. 297 311 -
4 g501.t1 SUPERFAMILY SSF56655 Carbohydrate phosphatase 4 319 1.54E-34

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g501/g501.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g501.t1.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0046855 inositol phosphate dephosphorylation BP
GO:0046854 phosphatidylinositol phosphate biosynthetic process BP

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