MmuALTA0003720-2/2 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000061048 | Cdh3
Description
cadherin 3 [Source:MGI Symbol;Acc:MGI:88356]
Coordinates
chr8:109065207-109067792:+
Coord C1 exon
chr8:109065207-109065392
Coord A exon
chr8:109067551-109067703
Coord C2 exon
chr8:109067704-109067792
Length
153 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AGATTCGTCTTCTCTCCTAGGGT
3' ss Score
8.73
Exon sequences
Seq C1 exon
TATGAGGCTTGGGTGCCTGAGAACGAAGTGGGCCATGAGGTACAGAGGCTGACAGTGACTGATCTCGATGTCCCCAACTCGCCAGCGTGGCGTGCCACCTACCACATCGTGGGAGGTGATGATGGGGACCATTTCACCATCACCACTCACCCAGAGACCAACCAAGGCGTCCTGACAACCAAGAAG
Seq A exon
GGTTTGGATTTTGAGGCTCAGGACCAACACACCCTGTATGTAGAAGTGACCAACGAGGCTCCCTTTGCAGTGAAGCTCCCGACAGCCACTGCCACCGTGGTGGTCCATGTGAAAGATGTCAACGAAGCCCCTGTGTTTGTTCCACCTTCCAAG
Seq C2 exon
GTCATTGAGGCCCAGGAAGGCATCTCTATTGGGGAACTGGTCTGCATCTATACCGCACAGGACCCAGACAAGGAGGACCAGAAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061048-10-12,10-11-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PU(61.0=98.4)
A:
NA
C2:
PF0002812=Cadherin=PD(37.0=45.7),PF0002812=Cadherin=PU(31.6=37.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAACGAAGTGGGCCATGAG
R:
TTCTGGTCCTCCTTGTCTGGG
Band lengths:
251-404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: