General information for g14818.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable pseudouridine-5’-phosphatase.
Parent gene
- The parent gene g14818 is located on chr_4: 2532243..2533419 (+ 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 | g14818 | g14818.t3 | TSS | g14818.t3 | 2532147 | 2532147 |
| chr_4 | g14818 | g14818.t3 | isoform | g14818.t3 | 2532243 | 2533419 |
| chr_4 | g14818 | g14818.t3 | exon | g14818.t3.exon1 | 2532243 | 2532655 |
| chr_4 | g14818 | g14818.t3 | cds | g14818.t3.CDS1 | 2532520 | 2532655 |
| chr_4 | g14818 | g14818.t3 | exon | g14818.t3.exon2 | 2532863 | 2533095 |
| chr_4 | g14818 | g14818.t3 | cds | g14818.t3.CDS2 | 2532863 | 2533095 |
| chr_4 | g14818 | g14818.t3 | exon | g14818.t3.exon3 | 2533243 | 2533419 |
| chr_4 | g14818 | g14818.t3 | cds | g14818.t3.CDS3 | 2533243 | 2533419 |
| chr_4 | g14818 | g14818.t3 | TTS | g14818.t3 | 2533523 | 2533523 |
Sequences
>g14818.t3 Gene=g14818 Length=823
ATGTCAATAAAATTTAAGCCTGTGACTCATTGCATATTTGATATGGATGGATTATTGTTA
GGTAAAAACTATAAAAAATAAAGAAATCTGAAAATTTTCTCTTATCAAAATTTCAAGGTT
TTGATTTTGTCAACTGCAATAAAGATAAAAAAATTTCAAGTAAAAAAAAATTTACTCAAC
AGACACTGAAGGACTTTATCATCAATTAACTCAAGAAATTATTGACAGATATCACAAAAA
TCCTCGTAAATTTTACACTATTGAAATTCAAGCTCAAATGATGGGAATTCCAATAAGAGA
AGAAGGAAAAAGAATTGCAGAGATTTTTGATTTGCCTTTTACTCCTGATGAATATGTTGA
AATGGTTCGAAAAGAAATTCCGGAATTAATGAAGAATTGTCAGAAATGTAAAGGTGCTGA
ATCGTTAATAAAACATCTTCATTCCCATAAAATCCCAATTTGTGTTGCAACTGCAAGTGG
ACGTGAATCTTTTGCAGCAAAATCAACAAACCATAAAGAATTTTTTAAACTTTTCAATCA
CATTCTTTTGGGAGGAACTGATGATGAAGTAAAGCATGGAAAACCGGCTCCAGACATTTT
TCTTATTGCTGCCAAAAGATTTAATGATAATGTGAAACCTGAAAATTGCCTTGTTTTTGA
AGATGCACCGAATGGACTCAAAGCAGCTATTGCAGCTGGTATGCAATGTGTAATGATTCC
AGATCCAAATATTTCTGATAAACATAAAAATGGTGCAACACTTGTTTTAAATTCACTTGA
TGATTTCAAACCTGAAGATTTTGGACTGCCTGCTAGAAACTAA
>g14818.t3 Gene=g14818 Length=181
MMGIPIREEGKRIAEIFDLPFTPDEYVEMVRKEIPELMKNCQKCKGAESLIKHLHSHKIP
ICVATASGRESFAAKSTNHKEFFKLFNHILLGGTDDEVKHGKPAPDIFLIAAKRFNDNVK
PENCLVFEDAPNGLKAAIAAGMQCVMIPDPNISDKHKNGATLVLNSLDDFKPEDFGLPAR
N
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g14818.t3 | Coils | Coil | Coil | 179 | 181 | - |
| 5 | g14818.t3 | Gene3D | G3DSA:1.10.150.240 | Putative phosphatase; domain 2 | 1 | 41 | 1.2E-54 |
| 4 | g14818.t3 | Gene3D | G3DSA:3.40.50.1000 | - | 42 | 167 | 1.2E-54 |
| 2 | g14818.t3 | PANTHER | PTHR18901 | 2-DEOXYGLUCOSE-6-PHOSPHATE PHOSPHATASE 2 | 1 | 179 | 9.1E-63 |
| 1 | g14818.t3 | Pfam | PF13419 | Haloacid dehalogenase-like hydrolase | 2 | 147 | 1.0E-15 |
| 3 | g14818.t3 | SUPERFAMILY | SSF56784 | HAD-like | 2 | 172 | 1.53E-32 |
| 7 | g14818.t3 | TIGRFAM | TIGR01509 | HAD-SF-IA-v3: HAD hydrolase, family IA, variant 3 | 94 | 147 | 1.7E-14 |
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 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.
