General information for g2494.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphoribosyl pyrophosphate synthase-associated protein 2.
Parent gene
- The parent gene g2494 is located on chr_3: 18280776..18288527 (+ 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_3 | g2494 | g2494.t10 | TSS | g2494.t10 | 18279890 | 18279890 |
| chr_3 | g2494 | g2494.t10 | isoform | g2494.t10 | 18279894 | 18281389 |
| chr_3 | g2494 | g2494.t10 | exon | g2494.t10.exon1 | 18279894 | 18280221 |
| chr_3 | g2494 | g2494.t10 | exon | g2494.t10.exon2 | 18280283 | 18280436 |
| chr_3 | g2494 | g2494.t10 | exon | g2494.t10.exon3 | 18280567 | 18281389 |
| chr_3 | g2494 | g2494.t10 | cds | g2494.t10.CDS1 | 18280634 | 18281389 |
| chr_3 | g2494 | g2494.t10 | TTS | g2494.t10 | 18281730 | 18281730 |
Sequences
>g2494.t10 Gene=g2494 Length=1305
AAAACCCTTCACTAACTGTTTGCTTGATCACTAGTATCCCAATTTTTCGAAAGTCGTACA
TTTGTATTGTCAATGCGCTTCGTCAAAAAAACATAAACATAACACAAATCCATTACATTA
GCACGCACAAAATAAAATTTTCGACTGTATAAACAGTTTGATCGATAAGAAATCACTCTT
CATTCTTGCAATCAATCAACTTGTTCGAATTTTATAGATTTCAACCCGTAAGATCGTTAT
CAAACCACTATATGGATTGTCCGTCAACGTCCGACATTGTGCTTCTGCACGGCAATTCTT
GTCCAGAGTTAGCAAACCTTATTGGCAGCCGATTAAATATTAAGTCTGGAGGATGCTCAG
TTTATCACAAGCCAAATCGAGAAACAATGGTTGATATCGGTGACTCTGTGCGCGGAAAAG
ATTGCTATATCATACAAACTGGAACAAAGTAAACCGAATGCAAACAATACGTTGAAATTA
GATAAAACATCAAGCGCAAAATCTATTGTTGCTGTTATTCCTTACTTGCCCTATTCAAAG
CAATGTAAGATGCGTAAACGTGGATCAATTGTCACAAAACTCATTGCTAAAATGATGTGT
AATGCTGGATTAACTCATGTTATTACAATGGACTTACATCAGAAGGAAATTCAAGGATTT
TTTGATTGTCCTGTTGATAATCTTCGAGCTTCGCCATTTTTACTTCAATATATTCAAGAG
TCAATTCCTGATTATCGTAATGCTGTTATTGTCGCTCGTAATCCTGGATCGGCTAAAAAA
GCTACCTCTTATGCTGAACGTTTACGTTTAGGAATCGCTGTTATCCATGGTGAACAAAAA
GATGCTGATAATGATGAAATTGACGGTCGAAATTCGCCACCAAATGTTCCAAAAGGACGA
ATGAGTGATATTTCATCAGGATTTCCAAGTCTCGTTGCTAAAGAAAAGCCACCGATTAAT
GTGGTTGGTGATGTGGGAGGCAGAATTGCTGTAATTGTTGATGATTTAATAGATGAAGTA
CAATCATTTGTCTCGGCTGCTGAAGTTCTTAAAGAAAGAGGAGCTTATAAAATTTATGTT
TTGGCAACACATGGTTTGCTTTCTTCTGATGCACCACGCTTAATTGAAGAATCTGCTATT
GATGAAGTTGTCGTTACAAATACTATACCGCATGAAATTCAGAAAATGCAGTGCCATAAA
ATTAAAACAGTCGATATTTCGATTCTTTTGTCAGAAGCTATTCGAAGAATACATAACAAA
GAATCGATGTCTCATCTTTTCAGAAATGTTACACTTGAGGACTAA
>g2494.t10 Gene=g2494 Length=251
MRKRGSIVTKLIAKMMCNAGLTHVITMDLHQKEIQGFFDCPVDNLRASPFLLQYIQESIP
DYRNAVIVARNPGSAKKATSYAERLRLGIAVIHGEQKDADNDEIDGRNSPPNVPKGRMSD
ISSGFPSLVAKEKPPINVVGDVGGRIAVIVDDLIDEVQSFVSAAEVLKERGAYKIYVLAT
HGLLSSDAPRLIEESAIDEVVVTNTIPHEIQKMQCHKIKTVDISILLSEAIRRIHNKESM
SHLFRNVTLED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2494.t10 | CDD | cd06223 | PRTases_typeI | 47 | 205 | 5.95214E-16 |
| 7 | g2494.t10 | Gene3D | G3DSA:3.40.50.2020 | - | 1 | 51 | 8.8E-11 |
| 6 | g2494.t10 | MobiDBLite | mobidb-lite | consensus disorder prediction | 98 | 118 | - |
| 2 | g2494.t10 | PANTHER | PTHR10210 | RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER | 1 | 249 | 8.5E-133 |
| 3 | g2494.t10 | PANTHER | PTHR10210:SF28 | PHOSPHORIBOSYL PYROPHOSPHATE SYNTHASE-ASSOCIATED PROTEIN 1 | 1 | 249 | 8.5E-133 |
| 1 | g2494.t10 | Pfam | PF14572 | Phosphoribosyl synthetase-associated domain | 61 | 245 | 8.6E-100 |
| 4 | g2494.t10 | SUPERFAMILY | SSF53271 | PRTase-like | 2 | 60 | 2.04E-12 |
| 5 | g2494.t10 | SUPERFAMILY | SSF53271 | PRTase-like | 61 | 244 | 3.67E-43 |
| 8 | g2494.t10 | TIGRFAM | TIGR01251 | ribP_PPkin: ribose-phosphate diphosphokinase | 2 | 245 | 2.6E-55 |
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 |
KEGG
Orthology
- This transcript has been annotated with K00948 (ribose-phosphate pyrophosphokinase)
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.
