General information for g16432.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable pseudouridine-5’-phosphatase.
Parent gene
- The parent gene g16432 is located on chr_4: 9422543..9426659 (+ 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_4 | g16432 | g16432.t1 | TSS | g16432.t1 | 9421476 | 9421476 |
| chr_4 | g16432 | g16432.t1 | isoform | g16432.t1 | 9421499 | 9422543 |
| chr_4 | g16432 | g16432.t1 | exon | g16432.t1.exon1 | 9421499 | 9421568 |
| chr_4 | g16432 | g16432.t1 | cds | g16432.t1.CDS1 | 9421499 | 9421568 |
| chr_4 | g16432 | g16432.t1 | exon | g16432.t1.exon2 | 9421775 | 9422002 |
| chr_4 | g16432 | g16432.t1 | cds | g16432.t1.CDS2 | 9421775 | 9422002 |
| chr_4 | g16432 | g16432.t1 | exon | g16432.t1.exon3 | 9422058 | 9422290 |
| chr_4 | g16432 | g16432.t1 | cds | g16432.t1.CDS3 | 9422058 | 9422290 |
| chr_4 | g16432 | g16432.t1 | exon | g16432.t1.exon4 | 9422361 | 9422543 |
| chr_4 | g16432 | g16432.t1 | cds | g16432.t1.CDS4 | 9422361 | 9422543 |
| chr_4 | g16432 | g16432.t1 | TTS | g16432.t1 | 9422572 | 9422572 |
Sequences
>g16432.t1 Gene=g16432 Length=714
ATGAACGGATCGTTTTATAAATATCGTCCTGTTACACATTGCATTTTTGACCTTGATGGA
TTGATTTTAGACACAGAAACTTTGGCATTTCAAGTAACTCAAAACATCCTAAATCGTTTT
TCAAATCCTCCAAAAATTCATACATGGGCAGTCAAAGAAAGTCTCTTAGGTCTTCAAGCT
GATGATGTTGCAAAAAAAATTGTCAACACTTATGATCTTCCAATAACATGGCAAGAATAC
AAAGAAATTGCAAAAACGGAAGCAAAAATTTTAATGCAAAATTGTCAAGTTTGTGATGGT
GCTGATCGTCTCATTCGACATTTATTCAATAACAAGATACCAATTTGTATTGCCACAAGT
AGCTCGAGAGAAGCGTTTATGGTGAAAACAATGAACCATAAAGAGCTTTTTAAAAAATTT
AACCACATTGTCATGGGCGCTAGTGATTGTGAAGTCAAGAATGGAAAACCGGCACCTGAC
ATTTTTTTAATTGCTGCTAAAAGATTTGATGATTGCCCTAAGAATGAAAATTGCCTCGTT
TTTGAAGATTCACCAAGTGGTGTTCAAGCAGCATTATCAGCTGGAATGCAAGTCGTTGCT
GTACCTGATCATCGAATTTCAAAAACTAAAGTCAAAAATGCAACAGTAATTCTAAAATCA
CTCAATTGTTTCCGACCTGAAGAATTTGGTTTGCCACCATTTGATGAAGAATAA
>g16432.t1 Gene=g16432 Length=237
MNGSFYKYRPVTHCIFDLDGLILDTETLAFQVTQNILNRFSNPPKIHTWAVKESLLGLQA
DDVAKKIVNTYDLPITWQEYKEIAKTEAKILMQNCQVCDGADRLIRHLFNNKIPICIATS
SSREAFMVKTMNHKELFKKFNHIVMGASDCEVKNGKPAPDIFLIAAKRFDDCPKNENCLV
FEDSPSGVQAALSAGMQVVAVPDHRISKTKVKNATVILKSLNCFRPEEFGLPPFDEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g16432.t1 | Gene3D | G3DSA:3.40.50.1000 | - | 14 | 221 | 0 |
| 5 | g16432.t1 | Gene3D | G3DSA:1.10.150.240 | Putative phosphatase; domain 2 | 25 | 95 | 0 |
| 2 | g16432.t1 | PANTHER | PTHR18901 | 2-DEOXYGLUCOSE-6-PHOSPHATE PHOSPHATASE 2 | 9 | 235 | 0 |
| 1 | g16432.t1 | Pfam | PF13419 | Haloacid dehalogenase-like hydrolase | 14 | 201 | 0 |
| 7 | g16432.t1 | SFLD | SFLDG01129 | C1.5: HAD, Beta-PGM, Phosphatase Like | 11 | 219 | 0 |
| 8 | g16432.t1 | SFLD | SFLDS00003 | Haloacid Dehalogenase | 11 | 219 | 0 |
| 3 | g16432.t1 | SUPERFAMILY | SSF56784 | HAD-like | 11 | 222 | 0 |
| 6 | g16432.t1 | TIGRFAM | TIGR01509 | HAD-SF-IA-v3: HAD hydrolase, family IA, variant 3 | 135 | 201 | 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:0016787 | hydrolase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01838 (beta-phosphoglucomutase)
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.
