General information for g17457.t3
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.t3 | TSS | g17457.t3 | 13584263 | 13584263 |
| chr_4 | g17457 | g17457.t3 | isoform | g17457.t3 | 13584421 | 13585739 |
| chr_4 | g17457 | g17457.t3 | exon | g17457.t3.exon1 | 13584421 | 13584816 |
| chr_4 | g17457 | g17457.t3 | cds | g17457.t3.CDS1 | 13584628 | 13584816 |
| chr_4 | g17457 | g17457.t3 | exon | g17457.t3.exon2 | 13584887 | 13585279 |
| chr_4 | g17457 | g17457.t3 | cds | g17457.t3.CDS2 | 13584887 | 13585279 |
| chr_4 | g17457 | g17457.t3 | exon | g17457.t3.exon3 | 13585338 | 13585431 |
| chr_4 | g17457 | g17457.t3 | cds | g17457.t3.CDS3 | 13585338 | 13585431 |
| chr_4 | g17457 | g17457.t3 | exon | g17457.t3.exon4 | 13585537 | 13585739 |
| chr_4 | g17457 | g17457.t3 | cds | g17457.t3.CDS4 | 13585537 | 13585739 |
| chr_4 | g17457 | g17457.t3 | TTS | g17457.t3 | 13585997 | 13585997 |
Sequences
>g17457.t3 Gene=g17457 Length=1086
ATGTTGAGAAATCTTCCAAAAAATATTGCTGAATTCAGTAAAGTCGAATTTAAAAAGTTT
TTTGATTCTTTTGATTATGTTTTACTTGATTGTGATGGTGAGTTATTAAATTTATTTCAT
ATTTAATTAAATTGAAATCTCAAATATCTTTTATGACATTGAGAAAGTTTTTAATGTGAA
AAAATTTCTTCACTGAACGCAAATCATATGTTTAATGTTTACATTGCTTTTCTAGGTGTT
CTTTGGCTTCACAATAATGTCATCGATGGAAGCAATACTGTTGTTAATCGTCTCATTGAA
TTGGGAAAGAAAATTTATTTCATTACTAACAACAGTACAAAAACTAGAGATGAATTGGCT
GAAAAAGCTAAAACCATGAATTTTAATGTTGGATTTGATAACATGATCTCAACATCCTAC
TTAGCTGCTCATTACTTAAAATCTTTAAACTTTAACAAAAAAGTCTACATCGTCGGCAGC
ACTGGAATTTCTCGAGAACTTGATGCTGTTGGTATTAAACATACTGGAGTTGGTCAAGAT
CCTATGAATGGATCTCTAGCAACTTTAGTGAAAGAACAATTCAAACCAGATCCTGAAATT
GGTGCTGTGATTGTTGGTTTTGATGAACACATTAGCTTTCCTAAAATGATGAAAGCTGCA
ACATATTTGGATAAAAAAGAAACAATTTTTATTGCTACAAACACTGATGAGAGATTTCCG
ATGCCTGGTTTTGTTATCCCAGGTACTGGTTCAATCGTTAGAGCTATTGAAACTTGTGGA
GAAAGAAAAGCAATCGTAATGGGTAAACCTGAAAATTGGCTTTGTGATATTTTCTTTAAA
GAAGAAATGAAGAAAGACAGAAGTAGATTTTTAATGGTTGGCGATCGCCTCAACACAGAC
ATTTTATTTGGCAAGAAGAACAAACTTCAAACACTTTTAGTTGAAACTGGAGTTCATAAA
ATCGAGAGAGTGAAGGAAATAATTGAAGAACTTGAAAATAGTAAAGAACAAGATGAAGAA
TTAGTTAATCAAATTCCTGATTTTTATATTACAAAATTGGGAGATCTTCTTAATAATCTT
GATTAA
>g17457.t3 Gene=g17457 Length=292
MFNVYIAFLGVLWLHNNVIDGSNTVVNRLIELGKKIYFITNNSTKTRDELAEKAKTMNFN
VGFDNMISTSYLAAHYLKSLNFNKKVYIVGSTGISRELDAVGIKHTGVGQDPMNGSLATL
VKEQFKPDPEIGAVIVGFDEHISFPKMMKAATYLDKKETIFIATNTDERFPMPGFVIPGT
GSIVRAIETCGERKAIVMGKPENWLCDIFFKEEMKKDRSRFLMVGDRLNTDILFGKKNKL
QTLLVETGVHKIERVKEIIEELENSKEQDEELVNQIPDFYITKLGDLLNNLD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g17457.t3 | Coils | Coil | Coil | 252 | 275 | - |
| 7 | g17457.t3 | Gene3D | G3DSA:3.40.50.1000 | - | 10 | 287 | 2.8E-92 |
| 8 | g17457.t3 | Gene3D | G3DSA:3.40.50.1000 | - | 69 | 199 | 2.8E-92 |
| 3 | g17457.t3 | PANTHER | PTHR19288 | 4-NITROPHENYLPHOSPHATASE-RELATED | 10 | 288 | 1.3E-75 |
| 4 | g17457.t3 | PANTHER | PTHR19288:SF75 | FI11325P-RELATED | 10 | 288 | 1.3E-75 |
| 15 | g17457.t3 | PIRSF | PIRSF000915 | PGP-type_phosphatase | 4 | 292 | 2.5E-91 |
| 1 | g17457.t3 | Pfam | PF13344 | Haloacid dehalogenase-like hydrolase | 10 | 104 | 1.6E-22 |
| 2 | g17457.t3 | Pfam | PF13242 | HAD-hyrolase-like | 197 | 257 | 7.7E-13 |
| 11 | g17457.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 12 | g17457.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 13 | g17457.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 14 | - |
| 14 | g17457.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 21 | - |
| 10 | g17457.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 292 | - |
| 5 | g17457.t3 | SUPERFAMILY | SSF56784 | HAD-like | 10 | 288 | 1.14E-50 |
| 6 | g17457.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 16 | g17457.t3 | TIGRFAM | TIGR01452 | PGP_euk: phosphoglycolate/pyridoxal phosphate phosphatase family | 10 | 287 | 8.5E-74 |
| 17 | g17457.t3 | TIGRFAM | TIGR01460 | HAD-SF-IIA: HAD hydrolase, family IIA | 10 | 248 | 5.7E-47 |
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 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. There were no conditions that were differentially expressed