General information for g17458.t14
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Phosphoglycolate phosphatase 2.
Parent gene
- The parent gene g17458 is located on chr_4: 13587661..13590155 (+ 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 | g17458 | g17458.t14 | TSS | g17458.t14 | 13586560 | 13586560 |
| chr_4 | g17458 | g17458.t14 | isoform | g17458.t14 | 13587354 | 13589036 |
| chr_4 | g17458 | g17458.t14 | exon | g17458.t14.exon1 | 13587354 | 13587501 |
| chr_4 | g17458 | g17458.t14 | cds | g17458.t14.CDS1 | 13587399 | 13587501 |
| chr_4 | g17458 | g17458.t14 | exon | g17458.t14.exon2 | 13587593 | 13588135 |
| chr_4 | g17458 | g17458.t14 | cds | g17458.t14.CDS2 | 13587593 | 13587891 |
| chr_4 | g17458 | g17458.t14 | exon | g17458.t14.exon3 | 13588688 | 13589036 |
| chr_4 | g17458 | g17458.t14 | TTS | g17458.t14 | 13589073 | 13589073 |
Sequences
>g17458.t14 Gene=g17458 Length=1040
GGTGCTGTCATTGTGGGACTTGATAAATTTTTCAACATTCCTAAAATGCTCAAAGCAATG
AATTATTTAAAAAATCCTGAAATTTTATTTTTAGCAACAAATGTTGATGTGAGATCAGAA
TTTCCGAATTTGATTTTTCCTGATGCAGGTCCAATAGTAGCTTCAATAGAAAAAGCTTCA
TATAGAAAAGCAACAGTAATTGGAAAACCTTCATCAATTCTATTTGATTTATTAAAGCTC
AAAAGTGATAAAGAAAGAATTTTAATGATTGGTGACAGATTGAGTGTTGATATTGCTTTT
GGAAAAAATTCCGGAATTAAAACAATGCTTGTTGAAACTGGTGATGATAAAATGGAAAAT
GTTGGAGAAATTTTGAGAAAGATTGAGGAAAATGAAGAAAATCTAATACCTGATTATGTT
GTAAAAAGTTTAGGATTATTTTTGTAAAACAAACAACAACAGAATTACAAACTACTACAG
AAAATTTATTTTGTTGGGATGAAACCATTGAAGACTTAGTTTATTTCTTAAAAGGATTAA
ATCTACCTTTAGAATTAAATTTATTGCAGACACAAAATCAACTAAACATTTTACAAAAGA
AATTGACAGATTCAAAAATTTTAATAAATATTCTTCAACAAGAAATGATTAAAAAAATGG
AAGCTTTTGATAAATTTCAAAATGATTTAGAATGAAGTCGAAGTTTGTCTTTTCGTCGTG
GTGATGTTAGAAGAGTTTGAAAATGTTTCCATTGGGCATACTGTGAAAATAAAAGTTTAT
AAAATAGATTAAGATTTTAAAATTCAAAAAAAATTTTCAACAAAACGAATTTTAAAAACT
CACATGGAAATTCATGATACAAACCGATCAAAACAATTAAAATGTAATAAATGTGATTAT
TCAACTTTTAAGAAAGGCGTATTAAAAACACATCAAAAAGCTCATGACTCTGCTCGTTGT
AAAATTTCAAATGTCACAACTGCAACTTTTCGACTAATAAAAAGGAATTTTAAAAAACCA
TCATTTAATTCATAATAAAA
>g17458.t14 Gene=g17458 Length=133
MLKAMNYLKNPEILFLATNVDVRSEFPNLIFPDAGPIVASIEKASYRKATVIGKPSSILF
DLLKLKSDKERILMIGDRLSVDIAFGKNSGIKTMLVETGDDKMENVGEILRKIEENEENL
IPDYVVKSLGLFL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g17458.t14 | Gene3D | G3DSA:3.40.50.1000 | - | 1 | 49 | 0.0e+00 |
| 5 | g17458.t14 | Gene3D | G3DSA:3.40.50.1000 | - | 50 | 123 | 3.7e-06 |
| 2 | g17458.t14 | PANTHER | PTHR19288 | 4-NITROPHENYLPHOSPHATASE-RELATED | 3 | 133 | 0.0e+00 |
| 3 | g17458.t14 | PANTHER | PTHR19288:SF77 | PYRIDOXAL (PYRIDOXINE, VITAMIN B6) PHOSPHATASE | 3 | 133 | 0.0e+00 |
| 1 | g17458.t14 | Pfam | PF13242 | HAD-hyrolase-like | 51 | 129 | 0.0e+00 |
| 4 | g17458.t14 | SUPERFAMILY | SSF56784 | HAD-like | 2 | 129 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
