DreEX0051120 @ danRer10
Exon Skipping
Gene
ENSDARG00000052094 | notch1b
Description
notch 1b [Source:ZFIN;Acc:ZDB-GENE-990415-183]
Coordinates
chr5:65034230-65039438:-
Coord C1 exon
chr5:65039325-65039438
Coord A exon
chr5:65037032-65037151
Coord C2 exon
chr5:65034230-65034382
Length
120 bp
Sequences
Splice sites
3' ss Seq
TTTGATTTTGTATCTTCCAGGCG
3' ss Score
9.74
5' ss Seq
AAGGTACAA
5' ss Score
6.82
Exon sequences
Seq C1 exon
GTCCCAATTGCCAAACGAATATCAACGAATGTGCCTCCAACCCATGCTTGAATCAAGGAACCTGCATTGATGATGTGGCCGGATACAAATGCAACTGTCTGCTTCCTTACACTG
Seq A exon
GCGAGAACTGTGAGACCCTGTTGGCCCCGTGCGGCTCTAAACCCTGTAAGAACGGAGGCGTTTGCAAGGAATCGGAAGACTACGAGAGCTTCTCTTGTGTGTGTCCTGCGGGATGGCAAG
Seq C2 exon
GCCAAACATGTGAGGTGGACATCAACGAGTGTGTTAAAAATCCTTGCCGAAATGACGCCATCTGCCAAAACTCCATTGGCAGCTACAAGTGCAGTTGCAAAGCGGGCTACACGGGTCGCAACTGTGAGACAGACATCGATGACTGCAAGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052094_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.5=5.1),PF0000822=EGF=PU(90.3=71.8)
A:
PF0000822=EGF=PD(6.5=4.9),PF0000822=EGF=PU(90.9=73.2)
C2:
PF0000822=EGF=PD(6.5=3.8),PF0764510=EGF_CA=WD(100=73.1),PF0000822=EGF=PU(9.7=5.8)
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAACGAATGTGCCTCCAACC
R:
GGCTTGCAGTCATCGATGTCT
Band lengths:
244-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]