General information for g12557.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 3’(2’)5’-bisphosphate nucleotidase 1.
Parent gene
- The parent gene g12557 is located on chr_1: 24379448..24380754 (+ 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_1 | g12557 | g12557.t1 | TSS | g12557.t1 | 24379401 | 24379401 |
| chr_1 | g12557 | g12557.t1 | isoform | g12557.t1 | 24379448 | 24380436 |
| chr_1 | g12557 | g12557.t1 | exon | g12557.t1.exon1 | 24379448 | 24379477 |
| chr_1 | g12557 | g12557.t1 | cds | g12557.t1.CDS1 | 24379448 | 24379477 |
| chr_1 | g12557 | g12557.t1 | exon | g12557.t1.exon2 | 24379531 | 24380436 |
| chr_1 | g12557 | g12557.t1 | cds | g12557.t1.CDS2 | 24379531 | 24380436 |
| chr_1 | g12557 | g12557.t1 | TTS | g12557.t1 | 24380756 | 24380756 |
Sequences
>g12557.t1 Gene=g12557 Length=936
ATGACTACACCTCTTATTATGAGAGTTATGGCAAGCGGCCTCTCTATTGCAGAGAAGGCA
GGCGAAGTTATCAGAGAAATTATGCTGAAAGGTGATTTGAATGTTGTTGATAAAGGTCAA
AAAAATTATGATCCACAAACAGAAGCTGATCGTAAATGTCAGCAAATGATTATCGGCTCA
CTTTCAAATCATTTCAAAAATCTTCGTATTATTGGGGAAGAGGGAGAAGAAGATGTGAGT
AAAATTCCAAAAGATTTGATTGTCGAACAGTTTGATACAAAGTTCCTTGAACAATATAAA
TGCCCTGAAGCATTTACTGACATTGCTGAGAATGATTTAGTCGTGTGGATTGACCCTTTG
GACGGAACCAACGAATTTGTTGAGGGATTAATTGAAAATGTCACTGTATTGATTGGCATT
GCATACAGAGAAGCATCAATAGGAGGAATCATTCATCAGCCATTCTTCAAATGCTCAACA
ACTAATAAAATGGGAAGAACCATATGGGGACTGAAAGAGCTTGGCACAGGCGGATATGTA
AGAAAAAGTCCTCCAGAAAATAAATTTATTGTAACAACCACACGATCTCATTCAAATGAA
ATTGTCAAAGCAACAATTGAAGCAATCAAAGCAGATCAAGTTTTAAGAGTCGGTGGATGT
GGTTTCAAAGTATTGCAATTGCTCGAAGGAAAAGCTCATTGTTATGTCTTTGCATCACCC
GGATGTAAAAAATGGGATACTTGCGCTTGTGAGGCTATTCTTGAACAAGACGGTGGAACT
TTAACAGATATCAATGGTAAACATTACAACTATGGACCTAATGTTGAATATCCTAACAAA
CAAGGTGTGCTTGCAACAGCTAAAGGAATTGATCATGATGCTTTAATTGAAAAAATTCCA
CAAAGCACAAAAGATTCATTGGGTACGAAAAAGTAA
>g12557.t1 Gene=g12557 Length=311
MTTPLIMRVMASGLSIAEKAGEVIREIMLKGDLNVVDKGQKNYDPQTEADRKCQQMIIGS
LSNHFKNLRIIGEEGEEDVSKIPKDLIVEQFDTKFLEQYKCPEAFTDIAENDLVVWIDPL
DGTNEFVEGLIENVTVLIGIAYREASIGGIIHQPFFKCSTTNKMGRTIWGLKELGTGGYV
RKSPPENKFIVTTTRSHSNEIVKATIEAIKADQVLRVGGCGFKVLQLLEGKAHCYVFASP
GCKKWDTCACEAILEQDGGTLTDINGKHYNYGPNVEYPNKQGVLATAKGIDHDALIEKIP
QSTKDSLGTKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12557.t1 | CDD | cd01640 | IPPase | 10 | 298 | 0 |
| 5 | g12557.t1 | Gene3D | G3DSA:3.30.540.10 | - | 2 | 178 | 0 |
| 6 | g12557.t1 | Gene3D | G3DSA:3.40.190.80 | - | 180 | 311 | 0 |
| 2 | g12557.t1 | PANTHER | PTHR43028 | 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 | 2 | 307 | 0 |
| 3 | g12557.t1 | PANTHER | PTHR43028:SF5 | 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 | 2 | 307 | 0 |
| 1 | g12557.t1 | Pfam | PF00459 | Inositol monophosphatase family | 14 | 302 | 0 |
| 4 | g12557.t1 | SUPERFAMILY | SSF56655 | Carbohydrate phosphatase | 9 | 301 | 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:0046855 | inositol phosphate dephosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K01082 (3’(2’), 5’-bisphosphate nucleotidase)
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.
