Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Putative inositol monophosphatase 3.

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 g5862 g5862.t5 TTS g5862.t5 12446993 12446993
chr_2 g5862 g5862.t5 isoform g5862.t5 12447061 12448404
chr_2 g5862 g5862.t5 exon g5862.t5.exon1 12447061 12447261
chr_2 g5862 g5862.t5 cds g5862.t5.CDS1 12447061 12447261
chr_2 g5862 g5862.t5 exon g5862.t5.exon2 12447328 12447468
chr_2 g5862 g5862.t5 cds g5862.t5.CDS2 12447328 12447468
chr_2 g5862 g5862.t5 exon g5862.t5.exon3 12447689 12448404
chr_2 g5862 g5862.t5 cds g5862.t5.CDS3 12447689 12447814
chr_2 g5862 g5862.t5 TSS g5862.t5 12448511 12448511

Sequences

>g5862.t5 Gene=g5862 Length=1058
ATGAATTTAGGCGGTGCAATAAAAATAAATAAATGTGCTGTTATAGTTTTAGTAGCAATT
TTACTGTTTATTTTCTATGTTTTTACCGCAACATCCATTGACCGAACGTATCCAAAGAAA
CACGATAAAGTAAATCTTCGGAAGTTAGTTATCGGTTTGATATTGGCTGCAAAAAGCGGC
GGAAATCAAGTGATAAAAATATCAAATGAACCAGATTTTGGTGGTATTAAAACAAAAGGA
AAAACACTTGAAGGTGAGGCATAATAAAAAGTTAGTGTAAAGGAATTTTTCATAAAGTAA
ATTTTTCTCTAGGTGTTAATGACTACGTGACAAAAGCTGACGTGAATTCACATTGCTCAA
TCGCTTACTCTTTATGGAGAATTTTCCCAAAACTTAATTTAATTTCTGAAGAAGATGTGC
AAAAAAAAAACTGTCCAGATGACATTGAAAATTTTGATCTCGACCCATCAGTACTTGGAA
ATGTTGAACTACCAGATATAAATGTGAAAACAGAGGATCTGACGCTATTTATTGATCCTT
TAGACGCAACTAAAGAATTCACTGAAAAACTTTTTCAATATGTGTCAGTAATGATTTGTG
TTGCTGATAAAAAAGGAGAACCAATTATTGGTGTGATTTACTTTCCATTCAGTAAAAGAC
TCTATTGGGCATGGAAAGGTCATGGAGTTTCTGAGAATCTTATTAATGTTAAGGCTGATT
TGGAAGACGGAGTACAAAATCCAATAGCTATTGTGTCAATGAGTCATGCTGGTGCTGTTA
AAGATCTTGTAAGAAGTATGTTGGGCGAAAAAGTATCAATTATTCAAGCAGCTGGTAGTG
GATATAAAATTATTCAAGTGCTTGAAGGAAATGCAACAATTTATTTACACAACACGCGAA
TAAAAAAATGGGATTTGTGTGCAGGAAATGCAATTGTCGATTCAGTAAAAGGTCGCATGG
CAACATTGAAGCGAGAAAAAATTAGTTACACAGCAAATTCAAATTATGTAGTTGAAGATG
GCTTGCTTGTAGAAATTAATAAAAATGTGATGAACTGA

>g5862.t5 Gene=g5862 Length=155
MICVADKKGEPIIGVIYFPFSKRLYWAWKGHGVSENLINVKADLEDGVQNPIAIVSMSHA
GAVKDLVRSMLGEKVSIIQAAGSGYKIIQVLEGNATIYLHNTRIKKWDLCAGNAIVDSVK
GRMATLKREKISYTANSNYVVEDGLLVEINKNVMN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g5862.t5 Gene3D G3DSA:3.30.540.10 - 1 33 6e-07
6 g5862.t5 Gene3D G3DSA:3.40.190.80 - 34 155 0e+00
2 g5862.t5 PANTHER PTHR43028:SF4 INOSITOL MONOPHOSPHATASE 3 1 151 0e+00
3 g5862.t5 PANTHER PTHR43028 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 1 151 0e+00
1 g5862.t5 Pfam PF00459 Inositol monophosphatase family 1 141 0e+00
4 g5862.t5 SUPERFAMILY SSF56655 Carbohydrate phosphatase 2 151 0e+00

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5862/g5862.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5862.t5.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0046855 inositol phosphate dephosphorylation 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