DreALTA0018664-1/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000052139 | notch3
Description
notch 3 [Source:ZFIN;Acc:ZDB-GENE-000329-5]
Coordinates
chr3:53283328-53283816:-
Coord C1 exon
chr3:53283664-53283816
Coord A exon
NA
Coord C2 exon
chr3:53283328-53283556
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTAGTGAGT
5' ss Score
7.43
3' ss Seq
TTGTTCTTACATTTTGCCAGACC
3' ss Score
6.49
Exon sequences
Seq C1 exon
GCCATTTGTGCAACAATGACATCAATGAATGCACCTCTAACCCGTGTAAGAACCGTGGGACTTGCACAAATACCCTTGGAGGCTATGTGTGCTCCTGCCGTGCTGGCTACACTGGACCCAATTGTGAAACTGATATCAATGACTGCTCGCCTA
Seq A exon
NA
Seq C2 exon
ACCCCTGTCTGAATGGTGGATCCTGTACTGATGGAGTAAACTCATTCCGCTGCAGTTGTCTGCCAGGCTTTACGGGGGCACGCTGTGCGACTGAGCTGAATGAATGTCAGAGTGTACCCTGCAAGAATGGTGGTACCTGCACTGATTATGTCAACAGCTATACTTGTACCTGTAAACCAGGCTTCACAGGCCTTCTGTGTGAGACCAACGTACCAGACTGCACTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052139-21-22,21-21-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.1=3.8),PF0000822=EGF=WD(100=59.6),PF0000822=EGF=PU(9.7=5.8)
A:
NA
C2:
PF0000822=EGF=PD(87.1=35.1),PF0000822=EGF=WD(100=40.3),PF0000822=EGF=PU(9.7=3.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCGTGGGACTTGCACAAAT
R:
ATCCACCATTCAGACAGGGGT
Band lengths:
124-154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]