DreINT0036951 @ danRer10
Intron Retention
Gene
ENSDARG00000039827 | bbs5
Description
Bardet-Biedl syndrome 5 [Source:ZFIN;Acc:ZDB-GENE-040426-1083]
Coordinates
chr9:48592333-48592674:-
Coord C1 exon
chr9:48592539-48592674
Coord A exon
chr9:48592429-48592538
Coord C2 exon
chr9:48592333-48592428
Length
110 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
AGCGTCGTCTTGTTTTTCAGGGT
3' ss Score
10.22
Exon sequences
Seq C1 exon
GGCTTATGAGACTTCTAAAATGTATCGGGATCTGAAGCTTAGAGGAGCTCTTATTCAGAATAAACAGCTGAGGCTTCTACCACAGGAGCAGGTTTATGACAAGATTAATGGAGTATGGAACCTGTCTAGTGATCAG
Seq A exon
GTAATTTCAAACTGCTTTGCAATATTATCATTTATTGTTTTATAATAAATTGAGCTGAGAAAAGTCTGTTGCTGAGGGTTTAAACAGCCAAGCGTCGTCTTGTTTTTCAG
Seq C2 exon
GGTAATCTTGGGACGTTTTTCATTACTAATGTGAGAATCGTGTGGCATGCCAACATGAACGAGAGCTTTAACGTCAGCATTCCCTATCTGCAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039827:ENSDART00000058255:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF072896=DUF1448=FE(13.4=100)
A:
NA
C2:
PF072896=DUF1448=FE(9.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGAGACTTCTAAAATGTATCGGGA
R:
TTTGCAGATAGGGAATGCTGACG
Band lengths:
226-336
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]