MmuALTA0016994-2/2 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000047793 | Sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:MGI Symbol;Acc:MGI:3045960]
Coordinates
chr1:95177814-95178342:+
Coord C1 exon
chr1:95177814-95177927
Coord A exon
chr1:95178185-95178228
Coord C2 exon
chr1:95178229-95178342
Length
44 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TCCTCTCCTCCCTCCCCCAGAGT
3' ss Score
11.53
Exon sequences
Seq C1 exon
AGACAGATGAGTGCCAAGCACAGCCATGCAGAAATGGGGGCTCCTGCAGGGACCTCCCCAGGGCTTTCATCTGCCAGTGCCCTGAAGGTTTTGTTGGAATCCACTGTGAAACAG
Seq A exon
AGTCCCTCCCTGCAGCTCGGGCCAACCCTTTGGGTGTTCTCCAG
Seq C2 exon
AGGTGGATGCCTGTGCCTCCAGCCCCTGCCAGCACGGAGGCCGGTGTGAGGACGGTGGTGGGGCCTACCTGTGCGTGTGTCCAGAGGGCTTCTTTGGCTACAACTGTGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047793-26-25,26-24-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=79.5)
A:
NA
C2:
PF0000822=EGF=WD(100=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGCCCTGAAGGTTTTGT
R:
CCAAAGAAGCCCTCTGGACAC
Band lengths:
138-182
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: