DreINT0172031 @ danRer10
Intron Retention
Gene
ENSDARG00000040869 | upp1
Description
uridine phosphorylase 1 [Source:ZFIN;Acc:ZDB-GENE-050306-2]
Coordinates
chr16:16304332-16304638:-
Coord C1 exon
chr16:16304502-16304638
Coord A exon
chr16:16304381-16304501
Coord C2 exon
chr16:16304332-16304380
Length
121 bp
Sequences
Splice sites
5' ss Seq
ACGGTAATG
5' ss Score
6.53
3' ss Seq
TCTGTTGATGTGCCATTCAGGAA
3' ss Score
6.52
Exon sequences
Seq C1 exon
ACGTTCACGTAGACCAGAGCACTGTGCCGGATGTTTCACACACCGCAGCAGCAGCAACTGACCGACACCGACGATTTTTAATCAAGCAACCCTGCTAGTGGACACTAAATCAACCGGTCATAAACCACAATCACACG
Seq A exon
GTAATGAACACTTCTCACTGGAGTGCTTTCTATCAAACTAATTGTCTGACAAAAGTTGTGCATGGGTTAAGGTTTTTTTTTTTAGCGTCGAATAGTCAGTGTCTGTTGATGTGCCATTCAG
Seq C2 exon
GAAAACAGAAAATGCCGCTGGGTGAAGAGAAAAACGGAAAATGCGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040869:ENSDART00000059905:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.231
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping 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:
CGTTCACGTAGACCAGAGCAC
R:
CCGTCGCATTTTCCGTTTTTCT
Band lengths:
185-306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]