RnoALTA0010520-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000007057 | Csmd2
Description
CUB and Sushi multiple domains 2 [Source:RGD Symbol;Acc:1565728]
Coordinates
chr5:146727874-146730115:+
Coord C1 exon
chr5:146727874-146728053
Coord A exon
chr5:146730050-146730052
Coord C2 exon
chr5:146730053-146730115
Length
3 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CTTCCTGTTGCCTCTCCCAGCAG
3' ss Score
7.31
Exon sequences
Seq C1 exon
CCCACCACTGCAAGCAACCAGAGACGCCCACACATGCCAATGTTGGAGCCCTGGACCTGCCATCCGTGGGTTACACACTCATCTACTCCTGCCAGGAGGGCTTCTCCCTCAGGGGTGGCTCCGAACACCGGACCTGCAAAGCCGACGGCAGCTGGACGGGCAAACCACCCATCTGCCTGG
Seq A exon
CAG
Seq C2 exon
AGGTCCGGCCCAGCGGGAGACCCATCAACACTGCCCGGGAGCCTCTGCTCACCCAAGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007057-76-86,76-85-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.409
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAACACCGGACCTGCAAAG
R:
GCAGTGTTGATGGGTCTCCC
Band lengths:
93-96
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]