DreEX0051106 @ danRer10
Exon Skipping
Gene
ENSDARG00000103554 | notch1a
Description
notch 1a [Source:ZFIN;Acc:ZDB-GENE-990415-173]
Coordinates
chr21:4612199-4615639:-
Coord C1 exon
chr21:4615491-4615639
Coord A exon
chr21:4613028-4613238
Coord C2 exon
chr21:4612199-4612280
Length
211 bp
Sequences
Splice sites
3' ss Seq
TTAAATATGTGCATGTGCAGGTG
3' ss Score
7.11
5' ss Seq
CAAGTCAGT
5' ss Score
2.74
Exon sequences
Seq C1 exon
GTCTATCGTGTATCTGGAGATTGATAACCGTCAGTGTTTTCAGCAGTCTGATGAGTGTTTTCAGAGCGCGACAGATGTGGCCGCTTTCCTCGGAGCTCTGGCCTCCAGTGGAAACCTCAACGTTCCCTATATCATCGAGGCCGTCACCA
Seq A exon
GTGAAGGTGGTCCCCCAAAGACTGGTGAGATGTACCCCATGTTCCTGGTCCTGCTGGCTCTGGCTGTTCTGGCTCTGGCCGCTATCGGTGTGGTCGTCTCCAGGAAGAGGAAGCGGGAACATGGCCAGCTTTGGTTCCCCGAGGGATTTAAAGTCAACGAACCCAAAAAGAAGAGGAGAGAACCAGTGGGAGAGGACTCTGTCGGACTCAA
Seq C2 exon
GCCTTTGAAAAACTCAGACAGCTCTCTGATGGATGAACAGCTGAGCGAATGGGCTGAAGACGACACCAATAAACGATTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103554-'33-37,'33-36,34-37
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=0.268 C2=0.643
Domain overlap (PFAM):
C1:
PF076847=NODP=FE(79.4=100)
A:
PF076847=NODP=PD(14.3=12.7)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTATCGTGTATCTGGAGATTGA
R:
CCGGAATCGTTTATTGGTGTCG
Band lengths:
231-442
Functional annotations
There are 2 annotated functions for this event
PMID: 16530045
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: inferred by author. ELM ID: ELMI002957; ELM sequence: LWFP; Overlap: FULL
PMID: 20028974
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: coimmunoprecipitation, inferred by author, isothermal titration calorimetry, x-ray crystallography. ELM ID: ELMI002957; ELM sequence: LWFP; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]