DreINT0172032 @ danRer10
Intron Retention
Gene
ENSDARG00000040869 | upp1
Description
uridine phosphorylase 1 [Source:ZFIN;Acc:ZDB-GENE-050306-2]
Coordinates
chr16:16303801-16304380:-
Coord C1 exon
chr16:16304332-16304380
Coord A exon
chr16:16303913-16304331
Coord C2 exon
chr16:16303801-16303912
Length
419 bp
Sequences
Splice sites
5' ss Seq
CGGGTATGT
5' ss Score
8.79
3' ss Seq
AACACATTTTCAATGCACAGGTC
3' ss Score
6.86
Exon sequences
Seq C1 exon
GAAAACAGAAAATGCCGCTGGGTGAAGAGAAAAACGGAAAATGCGACGG
Seq A exon
GTATGTAAAAAATCTGTCTTTTCCTCAATGTGAATGGACCTTCAGTCCTTCCGTTTGGTATGTCATTCAGTAATGTATTAAAATACTTTATATAGATAGGTTACGCAACTCAAAGCATTGTAAAGCACAGTGCCTAGATGACACTTGACATTTTGATGCAATTTAGTTTCATCAGCATGAGTTATTTTCACTCTTGTGAGAAACGACAAAAAAAAAAAAAAAAAAAAAAAATTGTTTCTCACAGTGCCCTTTTCCTGACCCTTGGGTTACACATACAGTACAGTAGTGATGAATATTACATTATGGTGTGTGGTTAAAGAAGTGTTACTTCATGTTGTCGCAATACATTAACCACAATAACCAACAGTTAACCTGTTTTATATCATTTATATTATATATAACACATTTTCAATGCACAG
Seq C2 exon
GTCAATATATGTAAACAATCCACACTTGGACTCTATGACAGATGACATTCTTTACCATTTTAACTTGGGAACATCCACTCATGATTTGCCAAAGATGTTTGGGGATGTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040869:ENSDART00000059905:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0104815=PNP_UDP_1=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]