General information for g8516.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t10 | TTS | g8516.t10 | 31106094 | 31106094 |
| chr_2 | g8516 | g8516.t10 | isoform | g8516.t10 | 31106395 | 31111041 |
| chr_2 | g8516 | g8516.t10 | exon | g8516.t10.exon1 | 31106395 | 31106812 |
| chr_2 | g8516 | g8516.t10 | cds | g8516.t10.CDS1 | 31106395 | 31106812 |
| chr_2 | g8516 | g8516.t10 | exon | g8516.t10.exon2 | 31106870 | 31106946 |
| chr_2 | g8516 | g8516.t10 | cds | g8516.t10.CDS2 | 31106870 | 31106946 |
| chr_2 | g8516 | g8516.t10 | exon | g8516.t10.exon3 | 31107005 | 31107103 |
| chr_2 | g8516 | g8516.t10 | cds | g8516.t10.CDS3 | 31107005 | 31107103 |
| chr_2 | g8516 | g8516.t10 | exon | g8516.t10.exon4 | 31109643 | 31109782 |
| chr_2 | g8516 | g8516.t10 | cds | g8516.t10.CDS4 | 31109643 | 31109782 |
| chr_2 | g8516 | g8516.t10 | exon | g8516.t10.exon5 | 31109855 | 31109898 |
| chr_2 | g8516 | g8516.t10 | cds | g8516.t10.CDS5 | 31109855 | 31109898 |
| chr_2 | g8516 | g8516.t10 | exon | g8516.t10.exon6 | 31110920 | 31111041 |
| chr_2 | g8516 | g8516.t10 | cds | g8516.t10.CDS6 | 31110920 | 31111041 |
| chr_2 | g8516 | g8516.t10 | TSS | g8516.t10 | 31111077 | 31111077 |
Sequences
>g8516.t10 Gene=g8516 Length=900
ATGCCTAACATTAAAGTGTTTTCTGGAACTTCACATCCTGATTTAGCTCAAAGAATCGTA
GATCGGTTAGGTATTGACTTGGGAAAAGTTGTAACAAAAAAATTTTCAAACCTGGAAACA
TGTGTGGAGATCGGAGAATCAGTACGTGGAGAGGATGTGTATATCGTTCAATCTGGTTCG
GGAGAAATTAATGACAACTTGATGGAACTTTTAATTATGATAAACGCATGCAAAATTGCA
TCAGCTTCAAGAGTGACAGCTGTGATACCATGTTTTCCATATGCAAGACAAGACAAAAAA
GACAAGAGTAGAGCACCCATTTCGGCAAAACTTGTTGCAAACATGTTGTCAGTTGCTGGT
GCTGACCATATCATTACAATGGATCTTCATGCTTCTCAAATACAGGGTTTCTTTGATATA
CCAGTGGATAATCTCTACGCAGAACCAGCAGTTCTGAAATGGATAAAAGAAAATATTCAG
GATATTGCTGATCGTCTTAATGTAGAATTTGCATTGATTCACAAAGAACGCAAAAAAGCA
AATGAAGTTGCATCAATGGTGTTAGTTGGAGATGTAAAAGACAGAGTAGCAATTTTAGTT
GATGACATGGCTGATACATGTGGAACAATTTGTCATGCAGCCGAGAAGCTTTTAGAAGCA
GGAGCAACAAAAGTTTATGCCATTTTAACACATGGGATTTTTAGCGGTCCAGCTATTTCG
CGAATAAATAATGCATGTTTCGAGGCGGTCGTTGTCACGAATACAATTCCACAAGATGGT
CATATGAAGGACTGTCCAAAAATACAGTGCATTGATGTGTCTATGATGTTTGCAGAAGCA
GTTCGTAGAACACATAATGGAGAAAGTGTCAGCTATCTTTTTAGTAATGTTCCATATTAG
>g8516.t10 Gene=g8516 Length=299
MPNIKVFSGTSHPDLAQRIVDRLGIDLGKVVTKKFSNLETCVEIGESVRGEDVYIVQSGS
GEINDNLMELLIMINACKIASASRVTAVIPCFPYARQDKKDKSRAPISAKLVANMLSVAG
ADHIITMDLHASQIQGFFDIPVDNLYAEPAVLKWIKENIQDIADRLNVEFALIHKERKKA
NEVASMVLVGDVKDRVAILVDDMADTCGTICHAAEKLLEAGATKVYAILTHGIFSGPAIS
RINNACFEAVVVTNTIPQDGHMKDCPKIQCIDVSMMFAEAVRRTHNGESVSYLFSNVPY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g8516.t10 | CDD | cd06223 | PRTases_typeI | 160 | 255 | 7.87493E-20 |
| 9 | g8516.t10 | Gene3D | G3DSA:3.40.50.2020 | - | 1 | 157 | 1.3E-77 |
| 8 | g8516.t10 | Gene3D | G3DSA:3.40.50.2020 | - | 158 | 271 | 2.9E-41 |
| 3 | g8516.t10 | PANTHER | PTHR10210 | RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER | 1 | 161 | 3.2E-181 |
| 5 | g8516.t10 | PANTHER | PTHR10210:SF105 | PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE 1-LIKE 3-RELATED | 1 | 161 | 3.2E-181 |
| 4 | g8516.t10 | PANTHER | PTHR10210 | RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER | 161 | 298 | 3.2E-181 |
| 6 | g8516.t10 | PANTHER | PTHR10210:SF105 | PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE 1-LIKE 3-RELATED | 161 | 298 | 3.2E-181 |
| 2 | g8516.t10 | Pfam | PF13793 | N-terminal domain of ribose phosphate pyrophosphokinase | 4 | 120 | 3.8E-46 |
| 1 | g8516.t10 | Pfam | PF14572 | Phosphoribosyl synthetase-associated domain | 184 | 294 | 4.4E-38 |
| 11 | g8516.t10 | ProSitePatterns | PS00114 | Phosphoribosyl pyrophosphate synthase signature. | 128 | 143 | - |
| 12 | g8516.t10 | SMART | SM01400 | Pribosyltran_N_2 | 4 | 120 | 8.5E-75 |
| 7 | g8516.t10 | SUPERFAMILY | SSF53271 | PRTase-like | 69 | 287 | 1.78E-56 |
| 13 | g8516.t10 | TIGRFAM | TIGR01251 | ribP_PPkin: ribose-phosphate diphosphokinase | 4 | 295 | 1.7E-107 |
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. There were no conditions that were differentially expressed