RnoEX6016004 @ rn6
Exon Skipping
Gene
ENSRNOG00000019322 | Notch1
Description
notch 1 [Source:RGD Symbol;Acc:3187]
Coordinates
chr3:3918643-3920456:-
Coord C1 exon
chr3:3920228-3920456
Coord A exon
chr3:3919530-3919731
Coord C2 exon
chr3:3918643-3918796
Length
202 bp
Sequences
Splice sites
3' ss Seq
TGCTTCTCGTCTGCCTCCAGCTC
3' ss Score
8.85
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
ACCCATGTCACAACGGGGGTTCCTGCACTGACGGGGTCAACGCGGCCTTCTGCGACTGCCTGCCCGGCTTCCAGGGTGCCTTCTGTGAGGAGGACATCAACGAATGCGCCAGCAATCCATGCCAAAATGGCGCCAACTGCACTGACTGCGTGGACAGCTACACGTGCACCTGCCCCACGGGCTTCAATGGCATCCATTGCGAGAACAACACACCTGACTGTACCGAGAG
Seq A exon
CTCCTGTTTCAATGGTGGCACCTGTGTGGATGGTATCAACTCCTTCACCTGTCTGTGCCCACCTGGCTTCACGGGCAGCTACTGCCAGTATGACGTCAATGAGTGTGACTCACGGCCCTGTCTGCATGGTGGCACCTGCCAAGACAGCTATGGTACCTATAAGTGTACCTGCCCACAGGGCTACACTGGTCTCAACTGCCAG
Seq C2 exon
AACCTTGTGCGCTGGTGTGACTCAGCTCCCTGCAAGAATGGCGGCAAGTGCTGGCAGACCAACACACAGTACCACTGCGAGTGCCGCAGCGGCTGGACTGGCTTCAACTGCGACGTGCTCAGTGTGTCCTGCGAGGTGGCTGCACAGAAGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019322-'22-21,'22-20,23-21=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(87.1=35.1),PF0000822=EGF=WD(100=40.3),PF0000822=EGF=PU(9.7=3.9)
A:
PF0000822=EGF=PD(87.1=39.7),PF0000822=EGF=WD(100=45.6)
C2:
PF0000822=EGF=WD(100=55.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTCACAACGGGGGTTCC
R:
GGTACTGTGTGTTGGTCTGCC
Band lengths:
299-501
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]