MmuALTD1008179-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000022311 | Csmd3
Description
CUB and Sushi multiple domains 3 [Source:MGI Symbol;Acc:MGI:2386403]
Coordinates
chr15:47913936-47948167:-
Coord C1 exon
chr15:47947987-47948167
Coord A exon
chr15:47947979-47947986
Coord C2 exon
chr15:47913936-47914105
Length
8 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGT
5' ss Score
7.7
3' ss Seq
ATATTCTGTTTTACCTACAGCTG
3' ss Score
10.8
Exon sequences
Seq C1 exon
AATATAACCTTGAGCCTTGTGAAGACCCTGGGATTCCTCAATATGGTAGCCGAGTTGGATTCAGCTTTGGAGTCGGTGATACTCTGACCTTCTCATGCTCATTGGGTTACCGACTGGAGGGTTCTTCTGAGATCATCTGTCTTGGCGGTGGCCGGCGAGTGTGGAGTGCACCTCTGCCAAG
Seq A exon
GTGTGTGG
Seq C2 exon
CTGAATGTGGTGCATCTGCAACAAATAACGAGGGAATTCTCCTCTCTCCAAATTACCCATTGAACTATGAAAACAACCACGAATGCATTTACAGCCTTCAGGTCCAAGCAGGAAAAGGCATCAATATTTCAGCCAGAACGTTTCATTTAGCTCAAGGGGATGTTCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022311-64-34,65-34-2/2
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=0.000
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:
GATCATCTGTCTTGGCGGTGG
R:
GGAGAGAGGAGAATTCCCTCGT
Band lengths:
100-108
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