General information for g7569.t1
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.t1 | TSS | g7569.t1 | 24580700 | 24580700 |
| chr_2 | g7569 | g7569.t1 | isoform | g7569.t1 | 24580787 | 24581528 |
| chr_2 | g7569 | g7569.t1 | exon | g7569.t1.exon1 | 24580787 | 24580891 |
| chr_2 | g7569 | g7569.t1 | cds | g7569.t1.CDS1 | 24580787 | 24580891 |
| chr_2 | g7569 | g7569.t1 | exon | g7569.t1.exon2 | 24580953 | 24581528 |
| chr_2 | g7569 | g7569.t1 | cds | g7569.t1.CDS2 | 24580953 | 24581528 |
| chr_2 | g7569 | g7569.t1 | TTS | g7569.t1 | 24581740 | 24581740 |
Sequences
>g7569.t1 Gene=g7569 Length=681
ATGTCAAAAATTGCAGCAAAAATTGGCCCATCGATTCTAAATGCTGATCTTTCACAGCTC
TATGATGAATCACAGAAATTACTTGACAATGGAGCTGATTATTTGCATTTAGATGTTATG
GATGGACATTTCGTCCCAAATTTAACTTTTGGTGCACCCGTTGTAAAATGTTTAAGAAAT
AAAGTCAAAGAAGCATTTTTTGAGACACACATGATGGTTTCTCGTCCGGAACAATGGATA
AATGATATGGCTGATGCAGGTGTTGATCAATACACTTTTCATATTGAACCTGTTGATGAT
GTCGCAAGTGTTTGTAGAAAAGTACGTGAAGCTGGAATGAAAGTAGGCTTAGCGATTAAA
CCAAAAACTCCAGTTGATGTTGTCGAACAATACGTTGAGATGGCTGATTTAGTTTTAATA
ATGACAGTTGAGCCTGGGTTTGGAGGACAAAAGTTTATGGAAGACATGATGCCAAAAGTC
AAACATCTTCGAGATAATCATCCAGCTTTAAATATTGAAGTTGATGGTGGTGTTGCTTTA
AAAACAATTGACTGCTGTGCAAAAGCTGGTGCTAATTGGATTGTAAGTGGAACTGGAGTA
ATTAAAGCCACAGATCAAGAAGCTGTTATTAAGCAATTAAGGAACTCTGTTCTTCAAGCT
ATTTCAGAATACTCAAAATAA
>g7569.t1 Gene=g7569 Length=226
MSKIAAKIGPSILNADLSQLYDESQKLLDNGADYLHLDVMDGHFVPNLTFGAPVVKCLRN
KVKEAFFETHMMVSRPEQWINDMADAGVDQYTFHIEPVDDVASVCRKVREAGMKVGLAIK
PKTPVDVVEQYVEMADLVLIMTVEPGFGGQKFMEDMMPKVKHLRDNHPALNIEVDGGVAL
KTIDCCAKAGANWIVSGTGVIKATDQEAVIKQLRNSVLQAISEYSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7569.t1 | CDD | cd00429 | RPE | 7 | 214 | 1.06542E-112 |
| 6 | g7569.t1 | Gene3D | G3DSA:3.20.20.70 | Aldolase class I | 3 | 225 | 1.6E-91 |
| 4 | g7569.t1 | Hamap | MF_02227 | Ribulose-phosphate 3-epimerase [rpe]. | 5 | 216 | 51.125927 |
| 2 | g7569.t1 | PANTHER | PTHR11749 | RIBULOSE-5-PHOSPHATE-3-EPIMERASE | 4 | 222 | 2.2E-95 |
| 3 | g7569.t1 | PANTHER | PTHR11749:SF3 | RIBULOSE-PHOSPHATE 3-EPIMERASE | 4 | 222 | 2.2E-95 |
| 7 | g7569.t1 | PIRSF | PIRSF001461 | RPE | 2 | 225 | 4.5E-85 |
| 1 | g7569.t1 | Pfam | PF00834 | Ribulose-phosphate 3 epimerase family | 7 | 200 | 5.7E-67 |
| 10 | g7569.t1 | ProSitePatterns | PS01085 | Ribulose-phosphate 3-epimerase family signature 1. | 35 | 49 | - |
| 9 | g7569.t1 | ProSitePatterns | PS01086 | Ribulose-phosphate 3-epimerase family signature 2. | 138 | 160 | - |
| 5 | g7569.t1 | SUPERFAMILY | SSF51366 | Ribulose-phoshate binding barrel | 6 | 216 | 2.04E-63 |
| 11 | g7569.t1 | TIGRFAM | TIGR01163 | rpe: ribulose-phosphate 3-epimerase | 7 | 214 | 6.8E-68 |
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:0006098 | pentose-phosphate shunt | BP |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0016857 | racemase and epimerase activity, acting on carbohydrates and derivatives | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0004750 | ribulose-phosphate 3-epimerase 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.
