Gene loci information

Transcript annotation

  • This transcript has been annotated as Uricase .

Parent gene

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_2 g4344 g4344.t9 TSS g4344.t9 1425138 1425138
chr_2 g4344 g4344.t9 isoform g4344.t9 1425358 1426325
chr_2 g4344 g4344.t9 exon g4344.t9.exon1 1425358 1425712
chr_2 g4344 g4344.t9 cds g4344.t9.CDS1 1425427 1425712
chr_2 g4344 g4344.t9 exon g4344.t9.exon2 1425779 1425905
chr_2 g4344 g4344.t9 cds g4344.t9.CDS2 1425779 1425905
chr_2 g4344 g4344.t9 exon g4344.t9.exon3 1425974 1426325
chr_2 g4344 g4344.t9 cds g4344.t9.CDS3 1425974 1426325
chr_2 g4344 g4344.t9 TTS g4344.t9 1426502 1426502

Sequences

>g4344.t9 Gene=g4344 Length=834
GGTCTAGTTCATACTGTTAAAGAATATGAAGTGACAACACTTCTTACACTCGATACACTA
AAAGATTTTATGCAAGCTGACAACTCTGACATCATTGCCACTGACTCGCAGAAAAACACT
GTCTATATTCTTGCTAAGAAGTATGGCATAAAATCCCCAGAGGATTTCGGAATTTTATTG
AGTTCTCATTTTATCACCAAATATGCGCACGTGACGAAAGCTGTAGTGAATATTCAAGAA
GTCATGTGGAATAGAGTGAGTTATGGCGATCATGCAAATAGCAAGTTGCATAATCATGCC
TTCATTCATACACCAATATGTACGAGAATCACGAATGTTGTTCTTAATCGCGAAGATAAA
TATCCATCTATCTCAAGTGGAATCAAAGATTTGCGTGTTTTAAAAACGACACAAAGTTCT
TTTATGAATTTTGTTAATGATGAATATCGCTCGCTGCCAGACGCTGATGATAGAATTTTT
AGTACAATCGTTGATTGCTCTTGGATTTATTCGCCAAATCCAAATGTTGATTTTTGTAAA
GTTTTTGATTCTGTAAAAAATTCCATTATATTTAATTTTGCTGGTGATCTAGAAAAGGGA
ATTGCATCAGCAAGTGTTCAAAATACAATTTATATCACTGAAAAAGATGTTCTTGAGAAA
ATCAAAGATATTAAATCTATTGAAATGACGCTGCCAAATAAGCATTATATTAACTTTAAT
TTTGCACCCTTTAAGTCGATTGTTTATGACGATGAACAGACTGTTTTCATCCCATTAGAT
AAACCATCAGGTGTCATTTATGCAAAATTGGATAGAAAAATAAGTAAACTGTAA

>g4344.t9 Gene=g4344 Length=254
MQADNSDIIATDSQKNTVYILAKKYGIKSPEDFGILLSSHFITKYAHVTKAVVNIQEVMW
NRVSYGDHANSKLHNHAFIHTPICTRITNVVLNREDKYPSISSGIKDLRVLKTTQSSFMN
FVNDEYRSLPDADDRIFSTIVDCSWIYSPNPNVDFCKVFDSVKNSIIFNFAGDLEKGIAS
ASVQNTIYITEKDVLEKIKDIKSIEMTLPNKHYINFNFAPFKSIVYDDEQTVFIPLDKPS
GVIYAKLDRKISKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g4344.t9 Gene3D G3DSA:3.10.270.10 Urate Oxidase; 1 254 9.1E-92
3 g4344.t9 PANTHER PTHR42874 URICASE 2 254 6.2E-89
11 g4344.t9 PIRSF PIRSF000241 Urate_oxidase 1 254 3.5E-90
6 g4344.t9 PRINTS PR00093 Uricase signature 4 18 6.7E-24
7 g4344.t9 PRINTS PR00093 Uricase signature 40 53 6.7E-24
4 g4344.t9 PRINTS PR00093 Uricase signature 108 124 6.7E-24
5 g4344.t9 PRINTS PR00093 Uricase signature 124 136 6.7E-24
1 g4344.t9 Pfam PF01014 Uricase 2 90 3.7E-25
2 g4344.t9 Pfam PF01014 Uricase 102 243 5.8E-27
12 g4344.t9 ProSitePatterns PS00366 Uricase signature. 108 135 -
9 g4344.t9 SUPERFAMILY SSF55620 Tetrahydrobiopterin biosynthesis enzymes-like 2 92 4.3E-27
8 g4344.t9 SUPERFAMILY SSF55620 Tetrahydrobiopterin biosynthesis enzymes-like 99 250 4.45E-46
13 g4344.t9 TIGRFAM TIGR03383 urate_oxi: urate oxidase 2 249 1.6E-80

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:0006144 purine nucleobase metabolic process BP
GO:0055114 NA NA
GO:0004846 urate oxidase activity MF

KEGG

Orthology

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. There were no conditions that were differentially expressed