DreINT0011648 @ danRer10
Intron Retention
Gene
ENSDARG00000086896 | FUBP3
Description
far upstream element (FUSE) binding protein 3 [Source:HGNC Symbol;Acc:HGNC:4005]
Coordinates
chr5:881190-881489:+
Coord C1 exon
chr5:881190-881261
Coord A exon
chr5:881262-881358
Coord C2 exon
chr5:881359-881489
Length
97 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGA
5' ss Score
5.73
3' ss Seq
GTGTGTGTGTGTGTGTGCAGCTC
3' ss Score
9.3
Exon sequences
Seq C1 exon
GTCAGCAGAACCAGGGCCAGAGCAGCGGCCCCGACTACAGCAAAGCCTGGGAGGAGTATTACAAGAAGCAGA
Seq A exon
GTAAGAGCTGCCGTCCTGCTGCATCGGTCAGTCAGTGTGAACAGACCCTCAGTGCTCACGCTTCTGTCTCTCTGTGTGTGTGTGTGTGTGTGTGCAG
Seq C2 exon
CTCAGGCAGCCGGACCGGGCTCTCAGCAGAGTTCTCCTCCAGACTACAGCGCCGCCTGGGTGGAGTATTACAGACAGCAGGGAGCTTATTACGGCCAGGGACAAACACAGGCCCCCGGCCTCCCGGTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086896:ENSDART00000166336:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.706
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(20.7=24.0),PF090055=DUF1897=PU(71.0=88.0)
A:
NA
C2:
PF090055=DUF1897=PD(25.8=19.0),PF090055=DUF1897=WD(100=76.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACCAGGGCCAGAGCAG
R:
GTGTTTGTCCCTGGCCGTAAT
Band lengths:
174-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]