General information for g8516.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ribose-phosphate pyrophosphokinase 1.
Parent gene
- The parent gene g8516 is located on chr_2: 31109203..31111553 (- 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 | g8516 | g8516.t17 | TTS | g8516.t17 | 31106227 | 31106227 |
| chr_2 | g8516 | g8516.t17 | isoform | g8516.t17 | 31107160 | 31111041 |
| chr_2 | g8516 | g8516.t17 | exon | g8516.t17.exon1 | 31107160 | 31107576 |
| chr_2 | g8516 | g8516.t17 | cds | g8516.t17.CDS1 | 31107547 | 31107576 |
| chr_2 | g8516 | g8516.t17 | exon | g8516.t17.exon2 | 31109643 | 31109782 |
| chr_2 | g8516 | g8516.t17 | cds | g8516.t17.CDS2 | 31109643 | 31109782 |
| chr_2 | g8516 | g8516.t17 | exon | g8516.t17.exon3 | 31109855 | 31109898 |
| chr_2 | g8516 | g8516.t17 | cds | g8516.t17.CDS3 | 31109855 | 31109898 |
| chr_2 | g8516 | g8516.t17 | exon | g8516.t17.exon4 | 31110920 | 31111041 |
| chr_2 | g8516 | g8516.t17 | cds | g8516.t17.CDS4 | 31110920 | 31111041 |
| chr_2 | g8516 | g8516.t17 | TSS | g8516.t17 | 31111077 | 31111077 |
Sequences
>g8516.t17 Gene=g8516 Length=723
ATGCCTAACATTAAAGTGTTTTCTGGAACTTCACATCCTGATTTAGCTCAAAGAATCGTA
GATCGGTTAGGTATTGACTTGGGAAAAGTTGTAACAAAAAAATTTTCAAACCTGGAAACA
TGTGTGGAGATCGGAGAATCAGTACGTGGAGAGGATGTGTATATCGTTCAATCTGGTTCG
GGAGAAATTAATGACAACTTGATGGAACTTTTAATTATGATAAACGCATGCAAAATTGCA
TCAGCTTCAAGAGTGACAGCTGTGATACCATGTTTTCCATATGCAAGACAAGACAAAAAA
GACAAGATTACGGTAAAATTGTGTTGTCAGCTTTAAAATATTTTAGAGACAATTTAATAT
TGCATTAATTTTTCATGATGATATTTTTTATGAAATATCACCTATAAAAATAGGAAGGAT
ATTTTTTCATTTTATTATATTTTCTGTAATACATTTTACATAACAATTTTTTAAAGGAAA
CGCATGAAGCAATTTATTTTCCATTATCTGTACATCTCTTTTGATTGTAAAAGCAGTTCT
GTTCAATTTCATTCATTCATGCTTTAGTTTAGTTATTTAAATTAACATGATTATTTTTCC
TTTATCCAAATTTTTTTACTCCCAAATAATTAATGTACGATCCTAATCATTAACAATCAC
ACACAGATTTAGTTAGAAAAAAAAGTAAAAATATTAATAATATTTTATAGAACAACTTGT
ACT
>g8516.t17 Gene=g8516 Length=111
MPNIKVFSGTSHPDLAQRIVDRLGIDLGKVVTKKFSNLETCVEIGESVRGEDVYIVQSGS
GEINDNLMELLIMINACKIASASRVTAVIPCFPYARQDKKDKITVKLCCQL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8516.t17 | Gene3D | G3DSA:3.40.50.2020 | - | 1 | 111 | 0 |
| 2 | g8516.t17 | PANTHER | PTHR10210:SF60 | PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE 1A-RELATED | 1 | 108 | 0 |
| 3 | g8516.t17 | PANTHER | PTHR10210 | RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER | 1 | 108 | 0 |
| 1 | g8516.t17 | Pfam | PF13793 | N-terminal domain of ribose phosphate pyrophosphokinase | 4 | 109 | 0 |
| 5 | g8516.t17 | SMART | SM01400 | Pribosyltran_N_2 | 4 | 109 | 0 |
| 4 | g8516.t17 | SUPERFAMILY | SSF53271 | PRTase-like | 2 | 103 | 0 |
| 7 | g8516.t17 | TIGRFAM | TIGR01251 | ribP_PPkin: ribose-phosphate diphosphokinase | 4 | 107 | 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:0000287 | magnesium ion binding | MF |
| GO:0004749 | ribose phosphate diphosphokinase activity | MF |
| GO:0009165 | nucleotide biosynthetic process | BP |
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.
