General information for g17458.t11
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 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.t11 | TSS | g17458.t11 | 13586560 | 13586560 |
| chr_4 | g17458 | g17458.t11 | isoform | g17458.t11 | 13586644 | 13589036 |
| chr_4 | g17458 | g17458.t11 | exon | g17458.t11.exon1 | 13586644 | 13586734 |
| chr_4 | g17458 | g17458.t11 | cds | g17458.t11.CDS1 | 13586644 | 13586734 |
| chr_4 | g17458 | g17458.t11 | exon | g17458.t11.exon2 | 13586989 | 13587501 |
| chr_4 | g17458 | g17458.t11 | cds | g17458.t11.CDS2 | 13586989 | 13587501 |
| chr_4 | g17458 | g17458.t11 | exon | g17458.t11.exon3 | 13587593 | 13588135 |
| chr_4 | g17458 | g17458.t11 | cds | g17458.t11.CDS3 | 13587593 | 13587891 |
| chr_4 | g17458 | g17458.t11 | exon | g17458.t11.exon4 | 13588688 | 13589036 |
| chr_4 | g17458 | g17458.t11 | TTS | g17458.t11 | 13589073 | 13589073 |
Sequences
>g17458.t11 Gene=g17458 Length=1496
ATGAATTATAAAATTCCTGTGAACTTATCAAATTACCCAAAAGAAAGTCTACAAAAGTTT
TTTGATGATTTTGATGTAATTTTTACTGATTGTGTTTTAATAAAAGAAAATTCAGTCATT
GATTCATCAAATCTTCTCATCAATAAATTTCTCGAAAATGGAAAGAAAGTTTTTATGGTT
TCCAACAATAATCAAACCACTCGTGATGATTTATTAAAAAAATGTCAGAATCTAAATTTC
AATTTCACAATCGATAATATTTTTACATCATCTTCCATCACTGGAATGTATTTGAAATCT
TTGAATTTTAATAAAAAAGCTTATGTGATTGGTTCAGAAGAATTAGGAGAAGAATTGACA
AAATTTGGTATTGAACATATTGGAATTGGAAGAGATGACATGAGTGACACTTATGGTGAA
TATATGATGAACAATTACAAACTTTATGAAGATGTTGGTGCTGTCATTGTGGGACTTGAT
AAATTTTTCAACATTCCTAAAATGCTCAAAGCAATGAATTATTTAAAAAATCCTGAAATT
TTATTTTTAGCAACAAATGTTGATGTGAGATCAGAATTTCCGAATTTGATTTTTCCTGAT
GCAGGTCCAATAGTAGCTTCAATAGAAAAAGCTTCATATAGAAAAGCAACAGTAATTGGA
AAACCTTCATCAATTCTATTTGATTTATTAAAGCTCAAAAGTGATAAAGAAAGAATTTTA
ATGATTGGTGACAGATTGAGTGTTGATATTGCTTTTGGAAAAAATTCCGGAATTAAAACA
ATGCTTGTTGAAACTGGTGATGATAAAATGGAAAATGTTGGAGAAATTTTGAGAAAGATT
GAGGAAAATGAAGAAAATCTAATACCTGATTATGTTGTAAAAAGTTTAGGATTATTTTTG
TAAAACAAACAACAACAGAATTACAAACTACTACAGAAAATTTATTTTGTTGGGATGAAA
CCATTGAAGACTTAGTTTATTTCTTAAAAGGATTAAATCTACCTTTAGAATTAAATTTAT
TGCAGACACAAAATCAACTAAACATTTTACAAAAGAAATTGACAGATTCAAAAATTTTAA
TAAATATTCTTCAACAAGAAATGATTAAAAAAATGGAAGCTTTTGATAAATTTCAAAATG
ATTTAGAATGAAGTCGAAGTTTGTCTTTTCGTCGTGGTGATGTTAGAAGAGTTTGAAAAT
GTTTCCATTGGGCATACTGTGAAAATAAAAGTTTATAAAATAGATTAAGATTTTAAAATT
CAAAAAAAATTTTCAACAAAACGAATTTTAAAAACTCACATGGAAATTCATGATACAAAC
CGATCAAAACAATTAAAATGTAATAAATGTGATTATTCAACTTTTAAGAAAGGCGTATTA
AAAACACATCAAAAAGCTCATGACTCTGCTCGTTGTAAAATTTCAAATGTCACAACTGCA
ACTTTTCGACTAATAAAAAGGAATTTTAAAAAACCATCATTTAATTCATAATAAAA
>g17458.t11 Gene=g17458 Length=300
MNYKIPVNLSNYPKESLQKFFDDFDVIFTDCVLIKENSVIDSSNLLINKFLENGKKVFMV
SNNNQTTRDDLLKKCQNLNFNFTIDNIFTSSSITGMYLKSLNFNKKAYVIGSEELGEELT
KFGIEHIGIGRDDMSDTYGEYMMNNYKLYEDVGAVIVGLDKFFNIPKMLKAMNYLKNPEI
LFLATNVDVRSEFPNLIFPDAGPIVASIEKASYRKATVIGKPSSILFDLLKLKSDKERIL
MIGDRLSVDIAFGKNSGIKTMLVETGDDKMENVGEILRKIEENEENLIPDYVVKSLGLFL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g17458.t11 | Gene3D | G3DSA:3.40.50.1000 | - | 29 | 297 | 0 |
| 7 | g17458.t11 | Gene3D | G3DSA:3.40.50.1000 | - | 90 | 220 | 0 |
| 3 | g17458.t11 | PANTHER | PTHR19288 | 4-NITROPHENYLPHOSPHATASE-RELATED | 18 | 297 | 0 |
| 4 | g17458.t11 | PANTHER | PTHR19288:SF75 | FI11325P-RELATED | 18 | 297 | 0 |
| 10 | g17458.t11 | PIRSF | PIRSF000915 | PGP-type_phosphatase | 2 | 300 | 0 |
| 1 | g17458.t11 | Pfam | PF13344 | Haloacid dehalogenase-like hydrolase | 30 | 125 | 0 |
| 2 | g17458.t11 | Pfam | PF13242 | HAD-hyrolase-like | 218 | 296 | 0 |
| 5 | g17458.t11 | SUPERFAMILY | SSF56784 | HAD-like | 29 | 296 | 0 |
| 8 | g17458.t11 | TIGRFAM | TIGR01452 | PGP_euk: phosphoglycolate/pyridoxal phosphate phosphatase family | 28 | 297 | 0 |
| 9 | g17458.t11 | TIGRFAM | TIGR01460 | HAD-SF-IIA: HAD hydrolase, family IIA | 30 | 266 | 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: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