RnoEX6016009 @ rn6
Exon Skipping
Gene
ENSRNOG00000019322 | Notch1
Description
notch 1 [Source:RGD Symbol;Acc:3187]
Coordinates
chr3:3914140-3916292:-
Coord C1 exon
chr3:3915721-3916292
Coord A exon
chr3:3915128-3915529
Coord C2 exon
chr3:3914140-3914288
Length
402 bp
Sequences
Splice sites
3' ss Seq
CTCGTCCTGTACCTCCTCAGCCC
3' ss Score
6.75
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
Exon sequences
Seq C1 exon
TGCATCTCAGGCCCACGCAGTCCCACCTGCCTATGCCTGGGCTCCTTCACTGGCCCTGAATGCCAGTTCCCAGCCAGCAGCCCCTGTGTGGGTAGCAACCCCTGCTACAATCAGGGCACCTGTGAGCCCACATCCGAGAGCCCTTTCTACCGCTGTCTATGCCCTGCCAAATTCAACGGGCTGCTGTGCCACATCCTGGACTACAGCTTCACAGGTGGCGCCGGGCGCGACATTCCCCCGCCACAGATTGAGGAGGCCTGCGAACTGCCTGAGTGCCAGGAGGATGCAGGCAATAAGGTCTGCAACCTTCAGTGTAATAATCACGCGTGTGGCTGGGACGGCGGCGACTGCTCCCTCAACTTCAATGACCCTTGGAAGAACTGCACTCAGTCCCTGCAGTGCTGGAAGTATTTTAGTGACGGCCACTGTGACAGCCAGTGCAACTCAGCTGGCTGCCTTTTTGATGGCTTCGACTGCCAGCTCACCGAGGGACAGTGCAA
Seq A exon
CCCCCTGTATGACCAGTACTGCAAGGACCACTTCAGTGATGGCCACTGCGACCAGGGCTGCAACAGTGCCGAGTGTGAGTGGGATGGACTGGACTGTGCAGAGCATGTCCCCGAGCGACTGGCAGCCGGCACACTGGTGCTGGTGGTGCTGCTTCCGCCCGATCAGCTACGCAACAACTCCTTCCACTTCCTGCGGGAGCTCAGCCACGTGCTGCACACCAACGTGGTCTTCAAGCGTGACGCGCAGGGCCAGCAGATGATCTTCCCCTACTATGGCCGCGAGGAAGAGCTACGCAAGCACCCGATCAAGCGTTCTGCAGTGGGCTGGGCCACAACGTCACTGCTTCCTGGCACCAATGGTGGGCGCCAGCGCAGGGAGCTGGACCCCATGGACATCCATGG
Seq C2 exon
CTCCATCGTCTACCTGGAGATCGACAACCGGCAGTGTGTACAGTCATCCTCGCAATGCTTCCAGAGCGCCACCGATGTGGCTGCCTTCCTAGGTGCTCTTGCCTCCCTCGGCAGCCTCAATATCCCCTACAAGATCGAAGCCGTAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019322-'30-31,'30-29,31-31=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=0.030 C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(14.7=2.6),PF0000822=EGF=WD(100=15.7),PF0000822=EGF=WD(100=16.8),PF0006612=Notch=WD(100=19.4),PF0006612=Notch=WD(100=19.9),PF0006612=Notch=PU(12.8=2.6)
A:
PF0006612=Notch=PD(84.6=24.4),PF068168=NOD=WD(100=42.2),PF076847=NODP=PU(4.8=2.2)
C2:
PF076847=NODP=FE(79.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCCACATCCTGGACTACA
R:
CCGGTTGTCGATCTCCAGGTA
Band lengths:
347-749
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]