General information for g2494.t1
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.t1 | isoform | g2494.t1 | 18279650 | 18281389 |
| chr_3 | g2494 | g2494.t1 | exon | g2494.t1.exon1 | 18279650 | 18279663 |
| chr_3 | g2494 | g2494.t1 | cds | g2494.t1.CDS1 | 18279650 | 18279663 |
| chr_3 | g2494 | g2494.t1 | exon | g2494.t1.exon2 | 18280111 | 18280221 |
| chr_3 | g2494 | g2494.t1 | cds | g2494.t1.CDS2 | 18280111 | 18280221 |
| chr_3 | g2494 | g2494.t1 | exon | g2494.t1.exon3 | 18280283 | 18280402 |
| chr_3 | g2494 | g2494.t1 | cds | g2494.t1.CDS3 | 18280283 | 18280402 |
| chr_3 | g2494 | g2494.t1 | exon | g2494.t1.exon4 | 18280463 | 18280510 |
| chr_3 | g2494 | g2494.t1 | cds | g2494.t1.CDS4 | 18280463 | 18280510 |
| chr_3 | g2494 | g2494.t1 | exon | g2494.t1.exon5 | 18280567 | 18281389 |
| chr_3 | g2494 | g2494.t1 | cds | g2494.t1.CDS5 | 18280567 | 18281389 |
| chr_3 | g2494 | g2494.t1 | TTS | g2494.t1 | 18281730 | 18281730 |
| chr_3 | g2494 | g2494.t1 | TSS | g2494.t1 | NA | NA |
Sequences
>g2494.t1 Gene=g2494 Length=1116
ATGAACAGAAAATCATTTCAACCCGTAAGATCGTTATCAAACCACTATATGGATTGTCCG
TCAACGTCCGACATTGTGCTTCTGCACGGCAATTCTTGTCCAGAGTTAGCAAACCTTATT
GGCAGCCGATTAAATATTAAGTCTGGAGGATGCTCAGTTTATCACAAGCCAAATCGAGAA
ACAATGGTTGATATCGGTGACTCTGTGCGCGGAAAAGATTGCTATATCATACAAACTGGA
ACAAAGGATTGCAACAACAATATTATGGAATTATTGATAATGGCATATGCTTGTAAAACA
TCAAGCGCAAAATCTATTGTTGCTGTTATTCCTTACTTGCCCTATTCAAAGCAATGTAAG
ATGCGTAAACGTGGATCAATTGTCACAAAACTCATTGCTAAAATGATGTGTAATGCTGGA
TTAACTCATGTTATTACAATGGACTTACATCAGAAGGAAATTCAAGGATTTTTTGATTGT
CCTGTTGATAATCTTCGAGCTTCGCCATTTTTACTTCAATATATTCAAGAGTCAATTCCT
GATTATCGTAATGCTGTTATTGTCGCTCGTAATCCTGGATCGGCTAAAAAAGCTACCTCT
TATGCTGAACGTTTACGTTTAGGAATCGCTGTTATCCATGGTGAACAAAAAGATGCTGAT
AATGATGAAATTGACGGTCGAAATTCGCCACCAAATGTTCCAAAAGGACGAATGAGTGAT
ATTTCATCAGGATTTCCAAGTCTCGTTGCTAAAGAAAAGCCACCGATTAATGTGGTTGGT
GATGTGGGAGGCAGAATTGCTGTAATTGTTGATGATTTAATAGATGAAGTACAATCATTT
GTCTCGGCTGCTGAAGTTCTTAAAGAAAGAGGAGCTTATAAAATTTATGTTTTGGCAACA
CATGGTTTGCTTTCTTCTGATGCACCACGCTTAATTGAAGAATCTGCTATTGATGAAGTT
GTCGTTACAAATACTATACCGCATGAAATTCAGAAAATGCAGTGCCATAAAATTAAAACA
GTCGATATTTCGATTCTTTTGTCAGAAGCTATTCGAAGAATACATAACAAAGAATCGATG
TCTCATCTTTTCAGAAATGTTACACTTGAGGACTAA
>g2494.t1 Gene=g2494 Length=371
MNRKSFQPVRSLSNHYMDCPSTSDIVLLHGNSCPELANLIGSRLNIKSGGCSVYHKPNRE
TMVDIGDSVRGKDCYIIQTGTKDCNNNIMELLIMAYACKTSSAKSIVAVIPYLPYSKQCK
MRKRGSIVTKLIAKMMCNAGLTHVITMDLHQKEIQGFFDCPVDNLRASPFLLQYIQESIP
DYRNAVIVARNPGSAKKATSYAERLRLGIAVIHGEQKDADNDEIDGRNSPPNVPKGRMSD
ISSGFPSLVAKEKPPINVVGDVGGRIAVIVDDLIDEVQSFVSAAEVLKERGAYKIYVLAT
HGLLSSDAPRLIEESAIDEVVVTNTIPHEIQKMQCHKIKTVDISILLSEAIRRIHNKESM
SHLFRNVTLED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2494.t1 | CDD | cd06223 | PRTases_typeI | 167 | 325 | 6.92553E-17 |
| 8 | g2494.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 218 | 238 | - |
| 3 | g2494.t1 | PANTHER | PTHR10210:SF53 | GH23275P | 21 | 367 | 1.3E-171 |
| 4 | g2494.t1 | PANTHER | PTHR10210 | RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER | 21 | 367 | 1.3E-171 |
| 2 | g2494.t1 | Pfam | PF13793 | N-terminal domain of ribose phosphate pyrophosphokinase | 26 | 140 | 1.7E-37 |
| 1 | g2494.t1 | Pfam | PF14572 | Phosphoribosyl synthetase-associated domain | 181 | 365 | 2.6E-99 |
| 7 | g2494.t1 | SMART | SM01400 | Pribosyltran_N_2 | 25 | 140 | 6.3E-49 |
| 5 | g2494.t1 | SUPERFAMILY | SSF53271 | PRTase-like | 24 | 177 | 9.31E-45 |
| 6 | g2494.t1 | SUPERFAMILY | SSF53271 | PRTase-like | 181 | 364 | 1.11E-42 |
| 9 | g2494.t1 | TIGRFAM | TIGR01251 | ribP_PPkin: ribose-phosphate diphosphokinase | 26 | 365 | 3.1E-82 |
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 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.
