General information for g8516.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ribose-phosphate pyrophosphokinase 2.
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.t3 | TTS | g8516.t3 | 31106094 | 31106094 |
| chr_2 | g8516 | g8516.t3 | isoform | g8516.t3 | 31106395 | 31107100 |
| chr_2 | g8516 | g8516.t3 | exon | g8516.t3.exon1 | 31106395 | 31106946 |
| chr_2 | g8516 | g8516.t3 | cds | g8516.t3.CDS1 | 31106395 | 31106946 |
| chr_2 | g8516 | g8516.t3 | exon | g8516.t3.exon2 | 31107005 | 31107100 |
| chr_2 | g8516 | g8516.t3 | cds | g8516.t3.CDS2 | 31107005 | 31107067 |
| chr_2 | g8516 | g8516.t3 | TSS | g8516.t3 | NA | NA |
Sequences
>g8516.t3 Gene=g8516 Length=648
AGAGCACCCATTTCGGCAAAACTTGTTGCAAACATGTTGTCAGTTGCTGGTGCTGACCAT
ATCATTACAATGGATCTTCATGCTTCTCAAATACAGGGTTTCTTTGATATACCAGTGGAT
AATCTCTACGCAGAACCAGCAGTTCTGAAATGGATAAAAGAAAATATTCAGGAGTGGCGT
AACTCGATTATCGTTTCTCCTGATGCTGGCGGTGCTAAACGTGTGACATCTATTGCTGAT
CGTCTTAATGTAGAATTTGCATTGATTCACAAAGAACGCAAAAAAGCAAATGAAGTTGCA
TCAATGGTGTTAGTTGGAGATGTAAAAGACAGAGTAGCAATTTTAGTTGATGACATGGCT
GATACATGTGGAACAATTTGTCATGCAGCCGAGAAGCTTTTAGAAGCAGGAGCAACAAAA
GTTTATGCCATTTTAACACATGGGATTTTTAGCGGTCCAGCTATTTCGCGAATAAATAAT
GCATGTTTCGAGGCGGTCGTTGTCACGAATACAATTCCACAAGATGGTCATATGAAGGAC
TGTCCAAAAATACAGTGCATTGATGTGTCTATGATGTTTGCAGAAGCAGTTCGTAGAACA
CATAATGGAGAAAGTGTCAGCTATCTTTTTAGTAATGTTCCATATTAG
>g8516.t3 Gene=g8516 Length=204
MLSVAGADHIITMDLHASQIQGFFDIPVDNLYAEPAVLKWIKENIQEWRNSIIVSPDAGG
AKRVTSIADRLNVEFALIHKERKKANEVASMVLVGDVKDRVAILVDDMADTCGTICHAAE
KLLEAGATKVYAILTHGIFSGPAISRINNACFEAVVVTNTIPQDGHMKDCPKIQCIDVSM
MFAEAVRRTHNGESVSYLFSNVPY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g8516.t3 | CDD | cd06223 | PRTases_typeI | 33 | 160 | 2.98159E-27 |
| 8 | g8516.t3 | Gene3D | G3DSA:3.40.50.2020 | - | 1 | 37 | 1.9E-8 |
| 7 | g8516.t3 | Gene3D | G3DSA:3.40.50.2020 | - | 38 | 176 | 9.5E-57 |
| 2 | g8516.t3 | PANTHER | PTHR10210 | RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER | 1 | 203 | 1.1E-125 |
| 3 | g8516.t3 | PANTHER | PTHR10210:SF105 | PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE 1-LIKE 3-RELATED | 1 | 203 | 1.1E-125 |
| 1 | g8516.t3 | Pfam | PF14572 | Phosphoribosyl synthetase-associated domain | 88 | 199 | 1.6E-38 |
| 6 | g8516.t3 | ProSitePatterns | PS00114 | Phosphoribosyl pyrophosphate synthase signature. | 14 | 29 | - |
| 4 | g8516.t3 | SUPERFAMILY | SSF53271 | PRTase-like | 1 | 44 | 2.21E-10 |
| 5 | g8516.t3 | SUPERFAMILY | SSF53271 | PRTase-like | 48 | 199 | 7.87E-53 |
| 9 | g8516.t3 | TIGRFAM | TIGR01251 | ribP_PPkin: ribose-phosphate diphosphokinase | 1 | 200 | 8.1E-75 |
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:0009116 | nucleoside metabolic process | BP |
| GO:0009165 | nucleotide biosynthetic process | BP |
| GO:0009156 | ribonucleoside monophosphate biosynthetic process | BP |
| GO:0044249 | cellular 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.
