DreEX0051153 @ danRer10
Exon Skipping
Gene
ENSDARG00000052139 | notch3
Description
notch 3 [Source:ZFIN;Acc:ZDB-GENE-000329-5]
Coordinates
chr3:53280279-53286055:-
Coord C1 exon
chr3:53285945-53286055
Coord A exon
chr3:53283906-53284139
Coord C2 exon
chr3:53280279-53280391
Length
234 bp
Sequences
Splice sites
3' ss Seq
TGTTTTGCTTCCATCCCCAGGTA
3' ss Score
11.88
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GTACCAACTGTGAAATCAACTTTGACGACTGTGCTAGCAACCCTTGTGACTACGGAATTTGCAAAGATGGCATAAATCGCTATGAGTGTGTCTGCAAACCTGGCTTTACCG
Seq A exon
GTAACTTATGTCAGGTGAACATCAATGAGTGTGCCTCCAGCCCCTGTCTAAATCAGGGCACCTGTGTGGATGGAGTTGCTAGTTTCACCTGTCTCTGTGAACCACCTTATAGTGGACCCACTTGTGCAGAACTGCTCACACCTTGCTCTCCCAACCCCTGTGCCAACCATGCTTCCTGCGTGCACACACCTGACTACCTAGGCTACCAGTGTAACTGCCAACCAGGCTGGCAAG
Seq C2 exon
GACGAGGGTGTCAAAGTAGATTCAGCGTGTGCGAGTCTCAGCCCTGTAAAAATGGAGGAGTATGTTCCTTGTCTGGCAGCTCCCCACCAGGATACTCTTGCACTTGTCAGCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052139_MULTIEX1-3/19=C1-11
Average complexity
C3
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=5.3),PF0000822=EGF=PU(90.0=71.1)
A:
PF0000822=EGF=PD(3.3=1.3),PF0000822=EGF=WD(100=39.2),PF0000822=EGF=PU(90.9=38.0)
C2:
PF0000822=EGF=PD(6.1=5.3),PF0000822=EGF=PU(79.4=71.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAACTGTGAAATCAACTTTGACG
R:
GCTGACAAGTGCAAGAGTATCCT
Band lengths:
220-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]