General information for g716.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Uridine phosphorylase 2.
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.t1 | TSS | g716.t1 | 5475010 | 5475010 |
| chr_3 | g716 | g716.t1 | isoform | g716.t1 | 5475490 | 5479088 |
| chr_3 | g716 | g716.t1 | exon | g716.t1.exon1 | 5475490 | 5475856 |
| chr_3 | g716 | g716.t1 | cds | g716.t1.CDS1 | 5475490 | 5475856 |
| chr_3 | g716 | g716.t1 | exon | g716.t1.exon2 | 5475931 | 5476026 |
| chr_3 | g716 | g716.t1 | cds | g716.t1.CDS2 | 5475931 | 5476026 |
| chr_3 | g716 | g716.t1 | exon | g716.t1.exon3 | 5476088 | 5476167 |
| chr_3 | g716 | g716.t1 | cds | g716.t1.CDS3 | 5476088 | 5476167 |
| chr_3 | g716 | g716.t1 | exon | g716.t1.exon4 | 5476222 | 5476363 |
| chr_3 | g716 | g716.t1 | cds | g716.t1.CDS4 | 5476222 | 5476363 |
| chr_3 | g716 | g716.t1 | exon | g716.t1.exon5 | 5478665 | 5478745 |
| chr_3 | g716 | g716.t1 | cds | g716.t1.CDS5 | 5478665 | 5478745 |
| chr_3 | g716 | g716.t1 | exon | g716.t1.exon6 | 5478799 | 5479088 |
| chr_3 | g716 | g716.t1 | cds | g716.t1.CDS6 | 5478799 | 5479088 |
| chr_3 | g716 | g716.t1 | TTS | g716.t1 | 5479509 | 5479509 |
Sequences
>g716.t1 Gene=g716 Length=1056
ATGACTACTTGGAGTCCAGGAATGTCTGACGAAGAAGCAGCAAAAGAGCGTGCTGAAGCA
GACGACGAATACAATTTTGATGGAACTGTACAATTGAAAAATCCCCATATTGAGCTAATG
GATCAAGATATTTTATATCATTTAGCGTTAGGCAGTGGTAGTCATGATTTGCAAGAAATG
TTTGGTGAAATAAAATTTGTTTGTCTTGGTGGCACACCAAATCGAATGAAAGAATTTGCA
TACTATATAATGGATGAAATTGGTTACAAATTGCCTGCTGGTACTCAACTGCAAGATATT
AGTGCATTTTCTTATCGCTATTCAATGTATAAGGTTGGACCAGTTCTCTCAATTTCTCAT
GGCATGGGTATTTCTTCGATTGGGATTCTATTACACGAAGTTATCAAACTCATGTATCAT
GCAAAGTGCAAAGATCCCATTTTCATCAGAATCGGCACATGCGGTGGAATTGGTATTGAA
GGTGGAACTGTTGTTGTTACAAATGAATCAGTCGATGGACAATTAAGAAGTTCATATGAA
ATGACTGTTCTTGGAAAAACAATTTATAGACCAGCAAAATTAGATCAAAAATTAGTACGA
GAATTTTTAGCATTAGCTGATCCGGCACAGGATCCATATGAGACTGTAACTGGAAAAACT
ATGTGCACATATGATTTTTATGAAGGACAAGGGCGTCTTGATGGAGCATTTTGCGATTAT
ACTGAAGCTGATAAAATGGAATATCTTCAGCGATGCAAAGATTTCGGTGTTATAAATATC
GAAATGGAGTCGATAGTATTTAGTGCATTGACTCATCATGCAGGTATCAAAGCAGCAGTC
GTTTGTGTTGCACTGCTTAATCGTTTGAATGGAGATCAAGTTATGGCACCTAAAGAAGTG
ATGAACGAATGGCAGAAGCGTCCTCAAATTTTAGTTTCACGCTTCATTCGTCGACAATTA
GCTAAGATTGGCCGTTTGAATAAAGTTCATGGTGGCAGCATTAAATCTCCAAGAAGATTT
AAATTAGTACAACAAGAAAGCGAAGCGCATGAATAA
>g716.t1 Gene=g716 Length=351
MTTWSPGMSDEEAAKERAEADDEYNFDGTVQLKNPHIELMDQDILYHLALGSGSHDLQEM
FGEIKFVCLGGTPNRMKEFAYYIMDEIGYKLPAGTQLQDISAFSYRYSMYKVGPVLSISH
GMGISSIGILLHEVIKLMYHAKCKDPIFIRIGTCGGIGIEGGTVVVTNESVDGQLRSSYE
MTVLGKTIYRPAKLDQKLVREFLALADPAQDPYETVTGKTMCTYDFYEGQGRLDGAFCDY
TEADKMEYLQRCKDFGVINIEMESIVFSALTHHAGIKAAVVCVALLNRLNGDQVMAPKEV
MNEWQKRPQILVSRFIRRQLAKIGRLNKVHGGSIKSPRRFKLVQQESEAHE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g716.t1 | CDD | cd17763 | UP_hUPP-like | 43 | 318 | 0.0 |
| 6 | g716.t1 | Gene3D | G3DSA:3.40.50.1580 | - | 13 | 323 | 7.5E-114 |
| 5 | g716.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 2 | g716.t1 | PANTHER | PTHR43691:SF3 | FI09636P-RELATED | 26 | 321 | 5.1E-123 |
| 3 | g716.t1 | PANTHER | PTHR43691 | URIDINE PHOSPHORYLASE | 26 | 321 | 5.1E-123 |
| 1 | g716.t1 | Pfam | PF01048 | Phosphorylase superfamily | 66 | 317 | 2.4E-29 |
| 4 | g716.t1 | SUPERFAMILY | SSF53167 | Purine and uridine phosphorylases | 46 | 316 | 2.23E-47 |
| 7 | g716.t1 | TIGRFAM | TIGR01719 | euk_UDPppase: uridine phosphorylase | 34 | 321 | 1.5E-125 |
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:0004850 | uridine phosphorylase activity | MF |
| GO:0009116 | nucleoside metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
| GO:0005737 | cytoplasm | CC |
| GO:0009166 | nucleotide catabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K00757 (uridine phosphorylase)
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.
