General information for g2494.t13
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.t13 | TSS | g2494.t13 | 18279890 | 18279890 |
| chr_3 | g2494 | g2494.t13 | isoform | g2494.t13 | 18280145 | 18288527 |
| chr_3 | g2494 | g2494.t13 | exon | g2494.t13.exon1 | 18280145 | 18281131 |
| chr_3 | g2494 | g2494.t13 | cds | g2494.t13.CDS1 | 18280634 | 18281131 |
| chr_3 | g2494 | g2494.t13 | exon | g2494.t13.exon2 | 18288424 | 18288527 |
| chr_3 | g2494 | g2494.t13 | cds | g2494.t13.CDS2 | 18288424 | 18288447 |
| chr_3 | g2494 | g2494.t13 | TTS | g2494.t13 | 18288957 | 18288957 |
Sequences
>g2494.t13 Gene=g2494 Length=1091
ATGGATTGTCCGTCAACGTCCGACATTGTGCTTCTGCACGGCAATTCTTGTCCAGAGTTA
GCAAACCTTATTGGCAGGTGAGTGCATGTATAATAAATCTCTGGATTATAACATTAACCT
GAATTCATTCATCCATAGCCGATTAAATATTAAGTCTGGAGGATGCTCAGTTTATCACAA
GCCAAATCGAGAAACAATGGTTGATATCGGTGACTCTGTGCGCGGAAAAGATTGCTATAT
CATACAAACTGGAACAAAGTAAACCGAATGCAAACAATACGTTGAAATTAGAGTAAATGT
TTTTCTTTTCTTATTTAGGGATTGCAACAACAATATTATGGAATTATTGATAATGGCATA
TGCTTGGTAAGCGGAAAAGTTATATAAACAACCAATTTTAATAATAATTTCTTTTATTAC
AGTAAAACATCAAGCGCAAAATCTATTGTTGCTGTTATTCCTTACTTGCCCTATTCAAAG
CAATGTAAGATGCGTAAACGTGGATCAATTGTCACAAAACTCATTGCTAAAATGATGTGT
AATGCTGGATTAACTCATGTTATTACAATGGACTTACATCAGAAGGAAATTCAAGGATTT
TTTGATTGTCCTGTTGATAATCTTCGAGCTTCGCCATTTTTACTTCAATATATTCAAGAG
TCAATTCCTGATTATCGTAATGCTGTTATTGTCGCTCGTAATCCTGGATCGGCTAAAAAA
GCTACCTCTTATGCTGAACGTTTACGTTTAGGAATCGCTGTTATCCATGGTGAACAAAAA
GATGCTGATAATGATGAAATTGACGGTCGAAATTCGCCACCAAATGTTCCAAAAGGACGA
ATGAGTGATATTTCATCAGGATTTCCAAGTCTCGTTGCTAAAGAAAAGCCACCGATTAAT
GTGGTTGGTGATGTGGGAGGCAGAATTGCTGTAATTGTTGATGATTTAATAGATGAAGTA
CAATCATTTGTCTCGGCTGCTGAAGTTAATTGTCAATGTCACCATAAATAATTTTTTGTT
TCTTCCTTCCGCTACTAGAAGCGTCGGTGTATGACAACAATATGGAAACTTGCACTTTTT
TATTATATTTC
>g2494.t13 Gene=g2494 Length=173
MRKRGSIVTKLIAKMMCNAGLTHVITMDLHQKEIQGFFDCPVDNLRASPFLLQYIQESIP
DYRNAVIVARNPGSAKKATSYAERLRLGIAVIHGEQKDADNDEIDGRNSPPNVPKGRMSD
ISSGFPSLVAKEKPPINVVGDVGGRIAVIVDDLIDEVQSFVSAAEVNCQCHHK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2494.t13 | CDD | cd06223 | PRTases_typeI | 47 | 166 | 1.02983E-6 |
| 6 | g2494.t13 | Gene3D | G3DSA:3.40.50.2020 | - | 1 | 51 | 4.5E-11 |
| 5 | g2494.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 98 | 118 | - |
| 2 | g2494.t13 | PANTHER | PTHR10210 | RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER | 1 | 166 | 9.5E-77 |
| 3 | g2494.t13 | PANTHER | PTHR10210:SF28 | PHOSPHORIBOSYL PYROPHOSPHATE SYNTHASE-ASSOCIATED PROTEIN 1 | 1 | 166 | 9.5E-77 |
| 1 | g2494.t13 | Pfam | PF14572 | Phosphoribosyl synthetase-associated domain | 61 | 166 | 1.3E-47 |
| 4 | g2494.t13 | SUPERFAMILY | SSF53271 | PRTase-like | 7 | 165 | 3.75E-18 |
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.
