DreEX6014329 @ danRer10
Exon Skipping
Gene
ENSDARG00000052094 | notch1b
Description
notch 1b [Source:ZFIN;Acc:ZDB-GENE-990415-183]
Coordinates
chr5:65042089-65046073:-
Coord C1 exon
chr5:65045840-65046073
Coord A exon
chr5:65045209-65045319
Coord C2 exon
chr5:65042089-65042281
Length
111 bp
Sequences
Splice sites
3' ss Seq
ACCTTGCCTTGTGTCAACAGGAG
3' ss Score
9.85
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
GATACACAGGGCAGCACTGTGAGACAGATGTAGATGAGTGTCTGTCCAACCCGTGTCACTACGGCACCTGTAAAGATGGCCTGGCGTCCTTCACCTGCGTCTGCCGTGCGGGTTTCATGGGCCGTCTGTGCGAGATCAACATTAATGAGTGTCTCAGTCAGCCATGCCAAAACGGAGGCACCTGCCAGGACCGTGAGAATGCCTACTTGTGTGTCTGCCCCAAAGGAACTGCAG
Seq A exon
GAGCTAACTGTGAGATCAACCTGGATGACTGTCAGAGCAATCCCTGTGATTTCGGGAGATGCATCGACAAGATAAATGGGTACGAGTGTGCCTGCGAACCGGGATACACAG
Seq C2 exon
GGAAAATGTGCAACATCAATATCGATGAATGTGCCATCAACCCCTGCCACAATGGCGGAACCTGTGTGGATGGAGTCAATGGCTTCACTTGTCTGTGCAGAGAGGGCTATCATGACACCACCTGCCAATCACAGCTCAACGAATGCCTCAGCAACCCCTGTATCCATGGACACTGTGAAGACAAAGTCAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052094-'14-16,'14-15,15-16=AN
Average complexity
A_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(16.1=6.3),PF0000822=EGF=WD(100=38.0),PF0000822=EGF=PU(90.3=35.4)
A:
PF0000822=EGF=PD(6.5=5.3),PF0000822=EGF=PU(93.1=71.1)
C2:
PF0000822=EGF=PD(3.4=1.5),PF0000822=EGF=WD(100=47.7),PF0000822=EGF=PU(53.3=24.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTCTGTGCGAGATCAACAT
R:
GTGATTGGCAGGTGGTGTCAT
Band lengths:
245-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]