MmuALTA0016994-3/4 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000047793 | Sned1
Description
sushi, nidogen and EGF-like domains 1 [Source:MGI Symbol;Acc:MGI:3045960]
Coordinates
chr1:93281237-93281765:+
Coord C1 exon
chr1:93281237-93281350
Coord A exon
chr1:93281608-93281673
Coord C2 exon
chr1:93281674-93281765
Length
66 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
AGTCCCTCCCTGCAGCTCGGGCCAACCCTTTGGGTGTTCTCCAGAGGTGGATGCCTGTGCCTCCAG
Seq C2 exon
CCCCTGCCAGCACGGAGGCCGGTGTGAGGACGGTGGTGGGGCCTACCTGTGCGTGTGTCCAGAGGGCTTCTTTGGCTACAACTGTGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047793-33-38,33-37,33-36,33-35-3/4
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCCATGCAGAAATGGGG
R:
CCAAAGAAGCCCTCTGGACAC
Band lengths:
170-236
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