General information for g5862.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative inositol monophosphatase 3.
Parent gene
- The parent gene g5862 is located on chr_2: 12447731..12448404 (- strand)
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.t1 | TTS | g5862.t1 | 12446993 | 12446993 |
| chr_2 | g5862 | g5862.t1 | isoform | g5862.t1 | 12447061 | 12448404 |
| chr_2 | g5862 | g5862.t1 | exon | g5862.t1.exon1 | 12447061 | 12447261 |
| chr_2 | g5862 | g5862.t1 | cds | g5862.t1.CDS1 | 12447061 | 12447261 |
| chr_2 | g5862 | g5862.t1 | exon | g5862.t1.exon2 | 12447328 | 12447468 |
| chr_2 | g5862 | g5862.t1 | cds | g5862.t1.CDS2 | 12447328 | 12447468 |
| chr_2 | g5862 | g5862.t1 | exon | g5862.t1.exon3 | 12447689 | 12448092 |
| chr_2 | g5862 | g5862.t1 | cds | g5862.t1.CDS3 | 12447689 | 12448092 |
| chr_2 | g5862 | g5862.t1 | exon | g5862.t1.exon4 | 12448152 | 12448404 |
| chr_2 | g5862 | g5862.t1 | cds | g5862.t1.CDS4 | 12448152 | 12448404 |
| chr_2 | g5862 | g5862.t1 | TSS | g5862.t1 | 12448511 | 12448511 |
Sequences
>g5862.t1 Gene=g5862 Length=999
ATGAATTTAGGCGGTGCAATAAAAATAAATAAATGTGCTGTTATAGTTTTAGTAGCAATT
TTACTGTTTATTTTCTATGTTTTTACCGCAACATCCATTGACCGAACGTATCCAAAGAAA
CACGATAAAGTAAATCTTCGGAAGTTAGTTATCGGTTTGATATTGGCTGCAAAAAGCGGC
GGAAATCAAGTGATAAAAATATCAAATGAACCAGATTTTGGTGGTATTAAAACAAAAGGA
AAAACACTTGAAGGTGTTAATGACTACGTGACAAAAGCTGACGTGAATTCACATTGCTCA
ATCGCTTACTCTTTATGGAGAATTTTCCCAAAACTTAATTTAATTTCTGAAGAAGATGTG
CAAAAAAAAAACTGTCCAGATGACATTGAAAATTTTGATCTCGACCCATCAGTACTTGGA
AATGTTGAACTACCAGATATAAATGTGAAAACAGAGGATCTGACGCTATTTATTGATCCT
TTAGACGCAACTAAAGAATTCACTGAAAAACTTTTTCAATATGTGTCAGTAATGATTTGT
GTTGCTGATAAAAAAGGAGAACCAATTATTGGTGTGATTTACTTTCCATTCAGTAAAAGA
CTCTATTGGGCATGGAAAGGTCATGGAGTTTCTGAGAATCTTATTAATGTTAAGGCTGAT
TTGGAAGACGGAGTACAAAATCCAATAGCTATTGTGTCAATGAGTCATGCTGGTGCTGTT
AAAGATCTTGTAAGAAGTATGTTGGGCGAAAAAGTATCAATTATTCAAGCAGCTGGTAGT
GGATATAAAATTATTCAAGTGCTTGAAGGAAATGCAACAATTTATTTACACAACACGCGA
ATAAAAAAATGGGATTTGTGTGCAGGAAATGCAATTGTCGATTCAGTAAAAGGTCGCATG
GCAACATTGAAGCGAGAAAAAATTAGTTACACAGCAAATTCAAATTATGTAGTTGAAGAT
GGCTTGCTTGTAGAAATTAATAAAAATGTGATGAACTGA
>g5862.t1 Gene=g5862 Length=332
MNLGGAIKINKCAVIVLVAILLFIFYVFTATSIDRTYPKKHDKVNLRKLVIGLILAAKSG
GNQVIKISNEPDFGGIKTKGKTLEGVNDYVTKADVNSHCSIAYSLWRIFPKLNLISEEDV
QKKNCPDDIENFDLDPSVLGNVELPDINVKTEDLTLFIDPLDATKEFTEKLFQYVSVMIC
VADKKGEPIIGVIYFPFSKRLYWAWKGHGVSENLINVKADLEDGVQNPIAIVSMSHAGAV
KDLVRSMLGEKVSIIQAAGSGYKIIQVLEGNATIYLHNTRIKKWDLCAGNAIVDSVKGRM
ATLKREKISYTANSNYVVEDGLLVEINKNVMN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5862.t1 | Gene3D | G3DSA:3.30.540.10 | - | 46 | 211 | 1.8E-33 |
| 7 | g5862.t1 | Gene3D | G3DSA:3.40.190.80 | - | 212 | 332 | 8.3E-26 |
| 2 | g5862.t1 | PANTHER | PTHR43028:SF4 | INOSITOL MONOPHOSPHATASE 3 | 29 | 328 | 1.4E-98 |
| 3 | g5862.t1 | PANTHER | PTHR43028 | 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 | 29 | 328 | 1.4E-98 |
| 1 | g5862.t1 | Pfam | PF00459 | Inositol monophosphatase family | 78 | 317 | 3.1E-38 |
| 8 | g5862.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 10 | g5862.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 33 | - |
| 9 | g5862.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 34 | 332 | - |
| 5 | g5862.t1 | SUPERFAMILY | SSF56655 | Carbohydrate phosphatase | 46 | 327 | 1.57E-46 |
| 4 | g5862.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 30 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5862/g5862.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5862.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0046855 | inositol phosphate dephosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K15759 (Golgi-resident PAP phosphatase)
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.
