General information for g716.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Uridine phosphorylase 1.
Parent gene
- The parent gene g716 is located on chr_3: 5478662..5479543 (+ 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 | g716 | g716.t4 | TSS | g716.t4 | 5478594 | 5478594 |
| chr_3 | g716 | g716.t4 | isoform | g716.t4 | 5478662 | 5479543 |
| chr_3 | g716 | g716.t4 | exon | g716.t4.exon1 | 5478662 | 5478745 |
| chr_3 | g716 | g716.t4 | cds | g716.t4.CDS1 | 5478715 | 5478745 |
| chr_3 | g716 | g716.t4 | exon | g716.t4.exon2 | 5478799 | 5479543 |
| chr_3 | g716 | g716.t4 | cds | g716.t4.CDS2 | 5478799 | 5479088 |
| chr_3 | g716 | g716.t4 | TTS | g716.t4 | 5479509 | 5479509 |
Sequences
>g716.t4 Gene=g716 Length=829
AAGGACAAGGGCGTCTTGATGGAGCATTTTGCGATTATACTGAAGCTGATAAAATGGAAT
ATCTTCAGCGATGCAAAGATTTCGGTGTTATAAATATCGAAATGGAGTCGATAGTATTTA
GTGCATTGACTCATCATGCAGGTATCAAAGCAGCAGTCGTTTGTGTTGCACTGCTTAATC
GTTTGAATGGAGATCAAGTTATGGCACCTAAAGAAGTGATGAACGAATGGCAGAAGCGTC
CTCAAATTTTAGTTTCACGCTTCATTCGTCGACAATTAGCTAAGATTGGCCGTTTGAATA
AAGTTCATGGTGGCAGCATTAAATCTCCAAGAAGATTTAAATTAGTACAACAAGAAAGCG
AAGCGCATGAATAAAATGTTTTTATGTGATAAAGTAATGAAAATGCCCGCATTGAAATAA
GCATATATGATACTCATAATATAAAGCTATTATTATTACATAATACAAAAAATTACTCAG
CTCAACTGTTGCTGTGAAAATTTACTTAAAAAATATGAAATACTTCTAATGACAACAACA
ACAACATCAATTAATGTTATAAAAGTACTTTCTCCATATTATTACTCATGCATTTTAATG
ATAAACTTATCAATGTAATTTGCTTTAAATCACCTATATAGTTAAAAATTTCACTCTATC
AATGTGTACTAATTTTTTATTTTAAATTATTCGTAAAAAATGTAATGTGTCTGTTTAAGA
ATATAGCTAATTTATCCTAATCTATATGTGAACAAAATATTAATTAAATACACCTTAAAT
TTTTTTATTTATGACAATCTTTAGTTTCAATCACCCTACACAAAACTAC
>g716.t4 Gene=g716 Length=106
MEYLQRCKDFGVINIEMESIVFSALTHHAGIKAAVVCVALLNRLNGDQVMAPKEVMNEWQ
KRPQILVSRFIRRQLAKIGRLNKVHGGSIKSPRRFKLVQQESEAHE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g716.t4 | Gene3D | G3DSA:3.40.50.1580 | - | 1 | 78 | 0 |
| 2 | g716.t4 | PANTHER | PTHR43691:SF8 | URIDINE PHOSPHORYLASE 2 | 1 | 77 | 0 |
| 3 | g716.t4 | PANTHER | PTHR43691 | URIDINE PHOSPHORYLASE | 1 | 77 | 0 |
| 1 | g716.t4 | Pfam | PF01048 | Phosphorylase superfamily | 4 | 72 | 0 |
| 4 | g716.t4 | SUPERFAMILY | SSF53167 | Purine and uridine phosphorylases | 2 | 71 | 0 |
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:0009116 | nucleoside metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
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.
