DreEX6014333 @ danRer10
Exon Skipping
Gene
ENSDARG00000052094 | notch1b
Description
notch 1b [Source:ZFIN;Acc:ZDB-GENE-990415-183]
Coordinates
chr5:65031188-65034382:-
Coord C1 exon
chr5:65034230-65034382
Coord A exon
chr5:65033923-65034151
Coord C2 exon
chr5:65031188-65031389
Length
229 bp
Sequences
Splice sites
3' ss Seq
GCATCCTTTTTTTCCTCCAGACC
3' ss Score
10.17
5' ss Seq
GAGGTAACC
5' ss Score
8.55
Exon sequences
Seq C1 exon
GCCAAACATGTGAGGTGGACATCAACGAGTGTGTTAAAAATCCTTGCCGAAATGACGCCATCTGCCAAAACTCCATTGGCAGCTACAAGTGCAGTTGCAAAGCGGGCTACACGGGTCGCAACTGTGAGACAGACATCGATGACTGCAAGCCCA
Seq A exon
ACCCCTGCAGTAACGGTGGCTTCTGCAAAGACGCAGTGAACGCCTTCGCTTGCACCTGCCTGCCGGGTTTCAGGGGCGGCAGATGCGAGGAGGACATTAACGAATGTGAGAGTAACCCGTGTAAAAACGGCGCCAACTGCACTGATTGTGTGAACAGCTACACCTGCACCTGTCCACCTGGATTCAGTGGGATTCACTGCGAGAACAACACACCTGACTGTACTGAGAG
Seq C2 exon
CTCTTGTTTTAATGGTGGCACATGTGTGGATGGCATCAACAGCTTCACTTGCCTGTGCCCTAAAGGCTTCACTGGCAACTACTGCCAGCATGACATCAACGAGTGCGACTCCAGACCGTGCATGAATGGAGGCACCTGCCAGGACAGCTATGGCACCTACAAGTGCACCTGCCCTCAGGGATACCACGGTCTTAACTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052094-'20-22,'20-21,21-22=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(6.5=3.8),PF0764510=EGF_CA=WD(100=73.1),PF0000822=EGF=PU(9.7=5.8)
A:
PF0000822=EGF=PD(87.1=35.1),PF0000822=EGF=WD(100=40.3),PF0000822=EGF=PU(9.7=3.9)
C2:
PF0000822=EGF=PD(87.1=39.7),PF0000822=EGF=WD(100=45.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACGCCATCTGCCAAAACT
R:
AAGACCGTGGTATCCCTGAGG
Band lengths:
295-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]