General information for g12557.t6
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.t6 | TSS | g12557.t6 | 24379401 | 24379401 |
| chr_1 | g12557 | g12557.t6 | isoform | g12557.t6 | 24379448 | 24380754 |
| chr_1 | g12557 | g12557.t6 | exon | g12557.t6.exon1 | 24379448 | 24379477 |
| chr_1 | g12557 | g12557.t6 | exon | g12557.t6.exon2 | 24379536 | 24380754 |
| chr_1 | g12557 | g12557.t6 | cds | g12557.t6.CDS1 | 24379582 | 24380436 |
| chr_1 | g12557 | g12557.t6 | TTS | g12557.t6 | 24380756 | 24380756 |
Sequences
>g12557.t6 Gene=g12557 Length=1249
ATGACTACACCTCTTATTATGAGAGTTATGCGGCCTCTCTATTGCAGAGAAGGCAGGCGA
AGTTATCAGAGAAATTATGCTGAAAGGTGATTTGAATGTTGTTGATAAAGGTCAAAAAAA
TTATGATCCACAAACAGAAGCTGATCGTAAATGTCAGCAAATGATTATCGGCTCACTTTC
AAATCATTTCAAAAATCTTCGTATTATTGGGGAAGAGGGAGAAGAAGATGTGAGTAAAAT
TCCAAAAGATTTGATTGTCGAACAGTTTGATACAAAGTTCCTTGAACAATATAAATGCCC
TGAAGCATTTACTGACATTGCTGAGAATGATTTAGTCGTGTGGATTGACCCTTTGGACGG
AACCAACGAATTTGTTGAGGGATTAATTGAAAATGTCACTGTATTGATTGGCATTGCATA
CAGAGAAGCATCAATAGGAGGAATCATTCATCAGCCATTCTTCAAATGCTCAACAACTAA
TAAAATGGGAAGAACCATATGGGGACTGAAAGAGCTTGGCACAGGCGGATATGTAAGAAA
AAGTCCTCCAGAAAATAAATTTATTGTAACAACCACACGATCTCATTCAAATGAAATTGT
CAAAGCAACAATTGAAGCAATCAAAGCAGATCAAGTTTTAAGAGTCGGTGGATGTGGTTT
CAAAGTATTGCAATTGCTCGAAGGAAAAGCTCATTGTTATGTCTTTGCATCACCCGGATG
TAAAAAATGGGATACTTGCGCTTGTGAGGCTATTCTTGAACAAGACGGTGGAACTTTAAC
AGATATCAATGGTAAACATTACAACTATGGACCTAATGTTGAATATCCTAACAAACAAGG
TGTGCTTGCAACAGCTAAAGGAATTGATCATGATGCTTTAATTGAAAAAATTCCACAAAG
CACAAAAGATTCATTGGGTACGAAAAAGTAAAGAGATTTTAAATTCGAAAAGGAAAACAG
GTGGTTGGGAAAGAATCAAAGCCGTGAAGTAAAAAATTATTTTCTTATCAATAAAAAATT
TCATACAATTTCGGGAAATCCATATTATCGTAGTCTGTAATTTTAAAGATAAATTGCTTG
CATAATATAAAATTACTTGATAATATTATGAAGTCATTGATAAAGCTGACTTCATCATAA
AATATGTCTATATAAAAATTGTACCTATGTCAAAATGCTTGGAGCTTTTGCTGAAAAATT
CATTGCAATAAAATATTTAATCAGCAATAGTAAACAGCTACGAAACAGC
>g12557.t6 Gene=g12557 Length=284
MLKGDLNVVDKGQKNYDPQTEADRKCQQMIIGSLSNHFKNLRIIGEEGEEDVSKIPKDLI
VEQFDTKFLEQYKCPEAFTDIAENDLVVWIDPLDGTNEFVEGLIENVTVLIGIAYREASI
GGIIHQPFFKCSTTNKMGRTIWGLKELGTGGYVRKSPPENKFIVTTTRSHSNEIVKATIE
AIKADQVLRVGGCGFKVLQLLEGKAHCYVFASPGCKKWDTCACEAILEQDGGTLTDINGK
HYNYGPNVEYPNKQGVLATAKGIDHDALIEKIPQSTKDSLGTKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g12557.t6 | Gene3D | G3DSA:3.30.540.10 | - | 1 | 151 | 0 |
| 6 | g12557.t6 | Gene3D | G3DSA:3.40.190.80 | - | 153 | 284 | 0 |
| 2 | g12557.t6 | PANTHER | PTHR43028 | 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 | 3 | 280 | 0 |
| 3 | g12557.t6 | PANTHER | PTHR43028:SF5 | 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 | 3 | 280 | 0 |
| 1 | g12557.t6 | Pfam | PF00459 | Inositol monophosphatase family | 5 | 275 | 0 |
| 4 | g12557.t6 | SUPERFAMILY | SSF56655 | Carbohydrate phosphatase | 14 | 274 | 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.
