DreALTD0005974-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000001559 | csmd2
Description
CUB and Sushi multiple domains 2 [Source:ZFIN;Acc:ZDB-GENE-030616-39]
Coordinates
chr19:36763918-36767659:-
Coord C1 exon
chr19:36767479-36767659
Coord A exon
chr19:36767471-36767478
Coord C2 exon
chr19:36763918-36764087
Length
8 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
ACTCTCCTTCTTTTCTGCAGCTG
3' ss Score
10.77
Exon sequences
Seq C1 exon
AATATGACCTGGAGCCTTGCGAGGATCCTGGGATCCCCCCCTTCAGCACTCGTAAGGGTCTGCAGTTTGGGGTTGGGGATGCGCTCATCTTCTCCTGTTTTCCGGGGTATCGTCTTGAGGGGCCTGCGAGGGTGGTGTGTTTAGGGGGGCGTCGGAGGGTCTGGAGTTCCCCTCTGCCAAG
Seq A exon
GTGTGTTG
Seq C2 exon
CTGAATGTGGATCATCTGTAACTGGAAAACAAGGTGTTTTACTCTCTCCTAATTACCCTGGTTACTATGGTAATGACCATGAGTGCATCTACTCCATTCAAACTCAACCTGGTAAAGGGATCCAGCTCAGAGCTCGTGATTTCCACCTGGAGGAAGACGACATGCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001559-27-28,28-28-2/2
Average complexity
Alt5
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=0.018
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=87.5)
A:
NA
C2:
PF0043115=CUB=PU(50.9=94.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGAGGGTGGTGTGTTTAG
R:
ACACCTTGTTTTCCAGTTACAGA
Band lengths:
95-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]