General information for g17457.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Glycerol-3-phosphate phosphatase.
Parent gene
- The parent gene g17457 is located on chr_4: 13585400..13585739 (+ 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 | g17457 | g17457.t1 | TSS | g17457.t1 | 13584263 | 13584263 |
| chr_4 | g17457 | g17457.t1 | isoform | g17457.t1 | 13584421 | 13585739 |
| chr_4 | g17457 | g17457.t1 | exon | g17457.t1.exon1 | 13584421 | 13584517 |
| chr_4 | g17457 | g17457.t1 | cds | g17457.t1.CDS1 | 13584421 | 13584517 |
| chr_4 | g17457 | g17457.t1 | exon | g17457.t1.exon2 | 13584656 | 13584816 |
| chr_4 | g17457 | g17457.t1 | cds | g17457.t1.CDS2 | 13584656 | 13584816 |
| chr_4 | g17457 | g17457.t1 | exon | g17457.t1.exon3 | 13584887 | 13585279 |
| chr_4 | g17457 | g17457.t1 | cds | g17457.t1.CDS3 | 13584887 | 13585279 |
| chr_4 | g17457 | g17457.t1 | exon | g17457.t1.exon4 | 13585338 | 13585431 |
| chr_4 | g17457 | g17457.t1 | cds | g17457.t1.CDS4 | 13585338 | 13585431 |
| chr_4 | g17457 | g17457.t1 | exon | g17457.t1.exon5 | 13585537 | 13585739 |
| chr_4 | g17457 | g17457.t1 | cds | g17457.t1.CDS5 | 13585537 | 13585739 |
| chr_4 | g17457 | g17457.t1 | TTS | g17457.t1 | 13585997 | 13585997 |
Sequences
>g17457.t1 Gene=g17457 Length=948
ATGTTGAGAAATCTTCCAAAAAATATTGCTGAATTCAGTAAAGTCGAATTTAAAAAGTTT
TTTGATTCTTTTGATTATGTTTTACTTGATTGTGATGGTGTTCTTTGGCTTCACAATAAT
GTCATCGATGGAAGCAATACTGTTGTTAATCGTCTCATTGAATTGGGAAAGAAAATTTAT
TTCATTACTAACAACAGTACAAAAACTAGAGATGAATTGGCTGAAAAAGCTAAAACCATG
AATTTTAATGTTGGATTTGATAACATGATCTCAACATCCTACTTAGCTGCTCATTACTTA
AAATCTTTAAACTTTAACAAAAAAGTCTACATCGTCGGCAGCACTGGAATTTCTCGAGAA
CTTGATGCTGTTGGTATTAAACATACTGGAGTTGGTCAAGATCCTATGAATGGATCTCTA
GCAACTTTAGTGAAAGAACAATTCAAACCAGATCCTGAAATTGGTGCTGTGATTGTTGGT
TTTGATGAACACATTAGCTTTCCTAAAATGATGAAAGCTGCAACATATTTGGATAAAAAA
GAAACAATTTTTATTGCTACAAACACTGATGAGAGATTTCCGATGCCTGGTTTTGTTATC
CCAGGTACTGGTTCAATCGTTAGAGCTATTGAAACTTGTGGAGAAAGAAAAGCAATCGTA
ATGGGTAAACCTGAAAATTGGCTTTGTGATATTTTCTTTAAAGAAGAAATGAAGAAAGAC
AGAAGTAGATTTTTAATGGTTGGCGATCGCCTCAACACAGACATTTTATTTGGCAAGAAG
AACAAACTTCAAACACTTTTAGTTGAAACTGGAGTTCATAAAATCGAGAGAGTGAAGGAA
ATAATTGAAGAACTTGAAAATAGTAAAGAACAAGATGAAGAATTAGTTAATCAAATTCCT
GATTTTTATATTACAAAATTGGGAGATCTTCTTAATAATCTTGATTAA
>g17457.t1 Gene=g17457 Length=315
MLRNLPKNIAEFSKVEFKKFFDSFDYVLLDCDGVLWLHNNVIDGSNTVVNRLIELGKKIY
FITNNSTKTRDELAEKAKTMNFNVGFDNMISTSYLAAHYLKSLNFNKKVYIVGSTGISRE
LDAVGIKHTGVGQDPMNGSLATLVKEQFKPDPEIGAVIVGFDEHISFPKMMKAATYLDKK
ETIFIATNTDERFPMPGFVIPGTGSIVRAIETCGERKAIVMGKPENWLCDIFFKEEMKKD
RSRFLMVGDRLNTDILFGKKNKLQTLLVETGVHKIERVKEIIEELENSKEQDEELVNQIP
DFYITKLGDLLNNLD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g17457.t1 | Coils | Coil | Coil | 275 | 298 | - |
| 7 | g17457.t1 | Gene3D | G3DSA:3.40.50.1000 | - | 26 | 310 | 2.9E-97 |
| 6 | g17457.t1 | Gene3D | G3DSA:3.40.50.1000 | - | 92 | 222 | 2.9E-97 |
| 3 | g17457.t1 | PANTHER | PTHR19288 | 4-NITROPHENYLPHOSPHATASE-RELATED | 17 | 311 | 5.9E-84 |
| 4 | g17457.t1 | PANTHER | PTHR19288:SF75 | FI11325P-RELATED | 17 | 311 | 5.9E-84 |
| 11 | g17457.t1 | PIRSF | PIRSF000915 | PGP-type_phosphatase | 2 | 315 | 9.8E-101 |
| 1 | g17457.t1 | Pfam | PF13344 | Haloacid dehalogenase-like hydrolase | 27 | 127 | 1.3E-26 |
| 2 | g17457.t1 | Pfam | PF13242 | HAD-hyrolase-like | 220 | 280 | 8.8E-13 |
| 5 | g17457.t1 | SUPERFAMILY | SSF56784 | HAD-like | 24 | 311 | 5.02E-56 |
| 9 | g17457.t1 | TIGRFAM | TIGR01452 | PGP_euk: phosphoglycolate/pyridoxal phosphate phosphatase family | 25 | 310 | 4.5E-78 |
| 10 | g17457.t1 | TIGRFAM | TIGR01460 | HAD-SF-IIA: HAD hydrolase, family IIA | 27 | 271 | 4.0E-51 |
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:0016791 | phosphatase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K19269 (phosphoglycolate 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.
