MmuALTA0004714-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000028804 | Csmd2
Description
CUB and Sushi multiple domains 2 [Source:MGI Symbol;Acc:MGI:2386401]
Coordinates
chr4:128552575-128554920:+
Coord C1 exon
chr4:128552575-128552754
Coord A exon
chr4:128554855-128554857
Coord C2 exon
chr4:128554858-128554920
Length
3 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
TTCCCCCTTGCCTTTCCCAGCAG
3' ss Score
7.79
Exon sequences
Seq C1 exon
CCCACCACTGCAAACAACCAGAGACGCCCACACACGCCAATGTCGGGGCCCTGGACCTGCCATCCATGGGTTACACACTCATCTACTCCTGCCAGGAGGGCTTCTCCCTCCGGGGTGGCTCCGAGCACCGTACCTGCAAAGCCGACGGCAGCTGGACAGGCAAACCGCCCGTCTGCCTGG
Seq A exon
CAG
Seq C2 exon
AGGTCCGGCCCAGCGGGAGACCCATCAACACAGCCCGGGAGCCTATGCTCACCCAAGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028804-85-84,85-83,85-82-2/3
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=0.246 A=NA C2=0.591
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGCACCGTACCTGCAAAG
R:
GCTGTGTTGATGGGTCTCCC
Band lengths:
93-96
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types