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_3 g248 g248.t1 TSS g248.t1 2011748 2011748
chr_3 g248 g248.t1 isoform g248.t1 2011792 2013170
chr_3 g248 g248.t1 exon g248.t1.exon1 2011792 2011891
chr_3 g248 g248.t1 cds g248.t1.CDS1 2011792 2011891
chr_3 g248 g248.t1 exon g248.t1.exon2 2012246 2012599
chr_3 g248 g248.t1 cds g248.t1.CDS2 2012246 2012599
chr_3 g248 g248.t1 exon g248.t1.exon3 2012660 2012786
chr_3 g248 g248.t1 cds g248.t1.CDS3 2012660 2012786
chr_3 g248 g248.t1 exon g248.t1.exon4 2012840 2013170
chr_3 g248 g248.t1 cds g248.t1.CDS4 2012840 2013170
chr_3 g248 g248.t1 TTS g248.t1 2013594 2013594

Sequences

>g248.t1 Gene=g248 Length=912
ATGTCATGTGATGATTTTCAAGATGGTCCAAATAAATATAAAATTAGTGGTAGAAAATAT
GGCAAGAATGAAATTAGAATCTTTTATGTTAATAAAGATGGTCCATGCCATATAATAAAA
GAACTCCTAATCAACACTCGTCTAACGCTTGAAACAAATAAAGAATACATCTCAGATGAT
AACACTGGAATTATTGATACAAAATCGCAAAGAAATTCAGTTTATATTTTGGCTAAAAAG
CATGGCATAAAAACAACAGAAGATTTTGGAACTCTTGTGTGTTCTTATTATCTTTCAACT
TATTCTCATGTTAAAACAGCTTCTTTGTATATTGAAGAAGAAAATTGGGAGAGATTGAGT
TATGATGATGAGACGAAAGGAAAATTACATAATCATGCTTTCATGCTTACACCAAAATAT
GTTCGTACTACTGTAATTGTTTTTAACCGTGGAGACGAATTTCCAACAATTTCAAATGGC
ATTAAAAATTTGCGTATTATAAAAACTACTCAAAATAGTTTCAAAAATTTTTCTCAAAAT
GAACATCGATCAATAGCTGATGCTGAAGAAAGAACTCTTTGCCTTCTTTTGACTTTTTCT
TGGACCTACAAGCAAAATCCACAAATTGATTTCTGTAAAACTTTCAATTCAATTTTGCAT
GTTGTTTTGTATAATTTTGCAGGAGATTTAGAAAAAGGAACAATGTTGACAAGTGTTCAA
AACACAATTTTTATGGCAGCAAAAAAGATTCTTGATAAAGTTGAAGAAATTGAATTTGTT
GAAGTCGTTTGTAAAAATTTTCATTATGACTTATTTGATTTCGAAATTTTTAAAATTCCG
AATGAAGTTAATGATGTCTTCTATCCTCAGGAAAACCCATCAGAAGTTCATATTAGATTG
GATAGAAAATGA

>g248.t1 Gene=g248 Length=303
MSCDDFQDGPNKYKISGRKYGKNEIRIFYVNKDGPCHIIKELLINTRLTLETNKEYISDD
NTGIIDTKSQRNSVYILAKKHGIKTTEDFGTLVCSYYLSTYSHVKTASLYIEEENWERLS
YDDETKGKLHNHAFMLTPKYVRTTVIVFNRGDEFPTISNGIKNLRIIKTTQNSFKNFSQN
EHRSIADAEERTLCLLLTFSWTYKQNPQIDFCKTFNSILHVVLYNFAGDLEKGTMLTSVQ
NTIFMAAKKILDKVEEIEFVEVVCKNFHYDLFDFEIFKIPNEVNDVFYPQENPSEVHIRL
DRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g248.t1 Gene3D G3DSA:3.10.270.10 Urate Oxidase; 3 303 0
3 g248.t1 PANTHER PTHR42874 URICASE 13 294 0
13 g248.t1 PIRSF PIRSF000241 Urate_oxidase 4 303 0
5 g248.t1 PRINTS PR00093 Uricase signature 21 32 0
8 g248.t1 PRINTS PR00093 Uricase signature 60 74 0
4 g248.t1 PRINTS PR00093 Uricase signature 96 109 0
7 g248.t1 PRINTS PR00093 Uricase signature 164 180 0
6 g248.t1 PRINTS PR00093 Uricase signature 180 192 0
1 g248.t1 Pfam PF01014 Uricase 19 146 0
2 g248.t1 Pfam PF01014 Uricase 158 294 0
10 g248.t1 SUPERFAMILY SSF55620 Tetrahydrobiopterin biosynthesis enzymes-like 17 148 0
9 g248.t1 SUPERFAMILY SSF55620 Tetrahydrobiopterin biosynthesis enzymes-like 155 294 0
12 g248.t1 TIGRFAM TIGR03383 urate_oxi: urate oxidase 17 294 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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. There were no conditions that were differentially expressed