DreEX0051103 @ danRer10
Exon Skipping
Gene
ENSDARG00000103554 | notch1a
Description
notch 1a [Source:ZFIN;Acc:ZDB-GENE-990415-173]
Coordinates
chr21:4627117-4629120:-
Coord C1 exon
chr21:4629007-4629120
Coord A exon
chr21:4627410-4627529
Coord C2 exon
chr21:4627117-4627269
Length
120 bp
Sequences
Splice sites
3' ss Seq
CTGTGTGTGTGTGTGTTTAGGTG
3' ss Score
11.02
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
Exon sequences
Seq C1 exon
GTCCGAACTGCCAGATGAACATTAATGAGTGTGCGTCGAACCCGTGTCTGAACCAGGGCTCCTGCATTGACGACGTGGCTGGATTCAAGTGCAACTGCATGCTGCCGTACACAG
Seq A exon
GTGAGGTGTGTGAGAATGTTTTAGCCCCTTGTTCTCCACGTCCCTGTAAAAACGGCGGTGTGTGTCGTGAATCTGAGGATTTCCAGAGCTTCTCCTGTAACTGTCCGGCTGGATGGCAAG
Seq C2 exon
GTCAAACGTGTGAGGTGGACATTAATGAGTGTGTGAGGAACCCGTGCACTAATGGAGGAGTGTGTGAAAACCTGCGCGGTGGATTTCAGTGCCGCTGCAATCCTGGATTCACTGGAGCTCTATGTGAAAACGACATTGACGACTGCGAGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103554-'20-25,'20-24,21-25
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(6.1=3.8),PF0764510=EGF_CA=WD(100=73.1),PF0000822=EGF=PU(9.7=5.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAATGAGTGTGCGTCGAACCC
R:
CTCGCAGTCGTCAATGTCGTT
Band lengths:
242-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]