General information for g7569.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ribulose-phosphate 3-epimerase.
Parent gene
- The parent gene g7569 is located on chr_2: 24580954..24581711 (+ 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_2 | g7569 | g7569.t2 | TSS | g7569.t2 | 24580700 | 24580700 |
| chr_2 | g7569 | g7569.t2 | isoform | g7569.t2 | 24580954 | 24581711 |
| chr_2 | g7569 | g7569.t2 | exon | g7569.t2.exon1 | 24580954 | 24581711 |
| chr_2 | g7569 | g7569.t2 | cds | g7569.t2.CDS1 | 24580965 | 24581528 |
| chr_2 | g7569 | g7569.t2 | TTS | g7569.t2 | 24581740 | 24581740 |
Sequences
>g7569.t2 Gene=g7569 Length=758
ATTTAGATGTTATGGATGGACATTTCGTCCCAAATTTAACTTTTGGTGCACCCGTTGTAA
AATGTTTAAGAAATAAAGTCAAAGAAGCATTTTTTGAGACACACATGATGGTTTCTCGTC
CGGAACAATGGATAAATGATATGGCTGATGCAGGTGTTGATCAATACACTTTTCATATTG
AACCTGTTGATGATGTCGCAAGTGTTTGTAGAAAAGTACGTGAAGCTGGAATGAAAGTAG
GCTTAGCGATTAAACCAAAAACTCCAGTTGATGTTGTCGAACAATACGTTGAGATGGCTG
ATTTAGTTTTAATAATGACAGTTGAGCCTGGGTTTGGAGGACAAAAGTTTATGGAAGACA
TGATGCCAAAAGTCAAACATCTTCGAGATAATCATCCAGCTTTAAATATTGAAGTTGATG
GTGGTGTTGCTTTAAAAACAATTGACTGCTGTGCAAAAGCTGGTGCTAATTGGATTGTAA
GTGGAACTGGAGTAATTAAAGCCACAGATCAAGAAGCTGTTATTAAGCAATTAAGGAACT
CTGTTCTTCAAGCTATTTCAGAATACTCAAAATAATTTTTTAAAATCTATCAACTTGCTA
ATCAAAGACAATAGACAATCACACACATTAAATATCTTCCTCTATCATAATGGATTAAAA
CTGAAATGATGAGAAACATATTAAAGTTCATACATACATTAAAAAGACATAAACTGTTGT
TTAAAAAAATTTTGTGATTTTTTTTATTATCGGTTACT
>g7569.t2 Gene=g7569 Length=187
MDGHFVPNLTFGAPVVKCLRNKVKEAFFETHMMVSRPEQWINDMADAGVDQYTFHIEPVD
DVASVCRKVREAGMKVGLAIKPKTPVDVVEQYVEMADLVLIMTVEPGFGGQKFMEDMMPK
VKHLRDNHPALNIEVDGGVALKTIDCCAKAGANWIVSGTGVIKATDQEAVIKQLRNSVLQ
AISEYSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7569.t2 | CDD | cd00429 | RPE | 1 | 175 | 1.72067E-93 |
| 6 | g7569.t2 | Gene3D | G3DSA:3.20.20.70 | Aldolase class I | 1 | 186 | 1.8E-76 |
| 2 | g7569.t2 | PANTHER | PTHR11749 | RIBULOSE-5-PHOSPHATE-3-EPIMERASE | 1 | 183 | 2.8E-79 |
| 3 | g7569.t2 | PANTHER | PTHR11749:SF3 | RIBULOSE-PHOSPHATE 3-EPIMERASE | 1 | 183 | 2.8E-79 |
| 1 | g7569.t2 | Pfam | PF00834 | Ribulose-phosphate 3 epimerase family | 1 | 161 | 1.4E-54 |
| 5 | g7569.t2 | ProSitePatterns | PS01086 | Ribulose-phosphate 3-epimerase family signature 2. | 99 | 121 | - |
| 4 | g7569.t2 | SUPERFAMILY | SSF51366 | Ribulose-phoshate binding barrel | 1 | 177 | 8.9E-52 |
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:0005975 | carbohydrate metabolic process | BP |
| GO:0016857 | racemase and epimerase activity, acting on carbohydrates and derivatives | MF |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01783 (ribulose-phosphate 3-epimerase)
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.
