MmuALTD0013315-1/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000047793 | Sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:MGI Symbol;Acc:MGI:3045960]
Coordinates
chr1:93259649-93261774:+
Coord C1 exon
chr1:93259649-93259779
Coord A exon
NA
Coord C2 exon
chr1:93261649-93261774
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGC
5' ss Score
9.1
3' ss Seq
GCTCCTTCCTGTGTCCACAGCCT
3' ss Score
9.47
Exon sequences
Seq C1 exon
GTTTCAACGCAGGTGATGGGCACCGCTACTTCAACATCCCCGGGTCGCGCACAGCAGACATGGCTGAGGTGGAGACCACCACCAACGTGGGCGTGCCCGGCCGCTGGGCGTTTAGAATCGATGATGCCCAG
Seq A exon
NA
Seq C2 exon
CCTCTGTGTGCCTGGTCCTGCGTCCATGCCTCAATGGTGGCAAGTGCATTGATGACTGCGTCACGGGCAATCCCTCTTACACCTGTTCCTGTCTCGCTGGCTTCACAGGCCGGAGATGCCACCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047793-8-9,9-9-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
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 Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
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
- 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