General information for g12557.t4
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.t4 | TSS | g12557.t4 | 24379401 | 24379401 |
| chr_1 | g12557 | g12557.t4 | isoform | g12557.t4 | 24379448 | 24380754 |
| chr_1 | g12557 | g12557.t4 | exon | g12557.t4.exon1 | 24379448 | 24379477 |
| chr_1 | g12557 | g12557.t4 | exon | g12557.t4.exon2 | 24379531 | 24379734 |
| chr_1 | g12557 | g12557.t4 | cds | g12557.t4.CDS1 | 24379656 | 24379734 |
| chr_1 | g12557 | g12557.t4 | exon | g12557.t4.exon3 | 24379841 | 24380754 |
| chr_1 | g12557 | g12557.t4 | cds | g12557.t4.CDS2 | 24379841 | 24380436 |
| chr_1 | g12557 | g12557.t4 | TTS | g12557.t4 | 24380756 | 24380756 |
Sequences
>g12557.t4 Gene=g12557 Length=1148
ATGACTACACCTCTTATTATGAGAGTTATGGCAAGCGGCCTCTCTATTGCAGAGAAGGCA
GGCGAAGTTATCAGAGAAATTATGCTGAAAGGTGATTTGAATGTTGTTGATAAAGGTCAA
AAAAATTATGATCCACAAACAGAAGCTGATCGTAAATGTCAGCAAATGATTATCGGCTCA
CTTTCAAATCATTTCAAAAATCTTCGTATTATTGGGGAAGAGGGAGAAGAAGATTCGTGT
GGATTGACCCTTTGGACGGAACCAACGAATTTGTTGAGGGATTAATTGAAAATGTCACTG
TATTGATTGGCATTGCATACAGAGAAGCATCAATAGGAGGAATCATTCATCAGCCATTCT
TCAAATGCTCAACAACTAATAAAATGGGAAGAACCATATGGGGACTGAAAGAGCTTGGCA
CAGGCGGATATGTAAGAAAAAGTCCTCCAGAAAATAAATTTATTGTAACAACCACACGAT
CTCATTCAAATGAAATTGTCAAAGCAACAATTGAAGCAATCAAAGCAGATCAAGTTTTAA
GAGTCGGTGGATGTGGTTTCAAAGTATTGCAATTGCTCGAAGGAAAAGCTCATTGTTATG
TCTTTGCATCACCCGGATGTAAAAAATGGGATACTTGCGCTTGTGAGGCTATTCTTGAAC
AAGACGGTGGAACTTTAACAGATATCAATGGTAAACATTACAACTATGGACCTAATGTTG
AATATCCTAACAAACAAGGTGTGCTTGCAACAGCTAAAGGAATTGATCATGATGCTTTAA
TTGAAAAAATTCCACAAAGCACAAAAGATTCATTGGGTACGAAAAAGTAAAGAGATTTTA
AATTCGAAAAGGAAAACAGGTGGTTGGGAAAGAATCAAAGCCGTGAAGTAAAAAATTATT
TTCTTATCAATAAAAAATTTCATACAATTTCGGGAAATCCATATTATCGTAGTCTGTAAT
TTTAAAGATAAATTGCTTGCATAATATAAAATTACTTGATAATATTATGAAGTCATTGAT
AAAGCTGACTTCATCATAAAATATGTCTATATAAAAATTGTACCTATGTCAAAATGCTTG
GAGCTTTTGCTGAAAAATTCATTGCAATAAAATATTTAATCAGCAATAGTAAACAGCTAC
GAAACAGC
>g12557.t4 Gene=g12557 Length=224
MSANDYRLTFKSFQKSSYYWGRGRRRFVWIDPLDGTNEFVEGLIENVTVLIGIAYREASI
GGIIHQPFFKCSTTNKMGRTIWGLKELGTGGYVRKSPPENKFIVTTTRSHSNEIVKATIE
AIKADQVLRVGGCGFKVLQLLEGKAHCYVFASPGCKKWDTCACEAILEQDGGTLTDINGK
HYNYGPNVEYPNKQGVLATAKGIDHDALIEKIPQSTKDSLGTKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12557.t4 | Gene3D | G3DSA:3.30.540.10 | - | 22 | 91 | 0.0e+00 |
| 8 | g12557.t4 | Gene3D | G3DSA:3.40.190.80 | - | 93 | 224 | 0.0e+00 |
| 2 | g12557.t4 | PANTHER | PTHR43028 | 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 | 25 | 220 | 0.0e+00 |
| 3 | g12557.t4 | PANTHER | PTHR43028:SF5 | 3’(2’),5’-BISPHOSPHATE NUCLEOTIDASE 1 | 25 | 220 | 0.0e+00 |
| 5 | g12557.t4 | PRINTS | PR00377 | Inositol monophosphatase superfamily signature | 28 | 44 | 2.9e-05 |
| 4 | g12557.t4 | PRINTS | PR00377 | Inositol monophosphatase superfamily signature | 155 | 179 | 2.9e-05 |
| 1 | g12557.t4 | Pfam | PF00459 | Inositol monophosphatase family | 25 | 215 | 0.0e+00 |
| 6 | g12557.t4 | SUPERFAMILY | SSF56655 | Carbohydrate phosphatase | 16 | 214 | 0.0e+00 |
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 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.
