MmuALTD0013315-2/2 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000047793 | Sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:MGI Symbol;Acc:MGI:3045960]
Coordinates
chr1:95156226-95158351:+
Coord C1 exon
chr1:95156226-95156356
Coord A exon
chr1:95156357-95156384
Coord C2 exon
chr1:95158226-95158351
Length
28 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
GCTCCTTCCTGTGTCCACAGCCT
3' ss Score
9.47
Exon sequences
Seq C1 exon
GTTTCAACGCAGGTGATGGGCACCGCTACTTCAACATCCCCGGGTCGCGCACAGCAGACATGGCTGAGGTGGAGACCACCACCAACGTGGGCGTGCCCGGCCGCTGGGCGTTTAGAATCGATGATGCCCAG
Seq A exon
GTGCGCGTGGGGGGCTGCGGCCATACAA
Seq C2 exon
CCTCTGTGTGCCTGGTCCTGCGTCCATGCCTCAATGGTGGCAAGTGCATTGATGACTGCGTCACGGGCAATCCCTCTTACACCTGTTCCTGTCTCGCTGGCTTCACAGGCCGGAGATGCCACCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047793-5-5,6-5-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF061199=NIDO=PD(47.3=78.2)
A:
NA
C2:
PF0000822=EGF=WD(100=83.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGACATGGCTGAGGTGGAGA
R:
ATGCACTTGCCACCATTGAGG
Band lengths:
126-154
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: