MmuINT0155445 @ mm10
Intron Retention
Gene
ENSMUSG00000028369 | Svep1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:MGI Symbol;Acc:MGI:1928849]
Coordinates
chr4:58084515-58084986:-
Coord C1 exon
chr4:58084810-58084986
Coord A exon
chr4:58084600-58084809
Coord C2 exon
chr4:58084515-58084599
Length
210 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGC
5' ss Score
10.4
3' ss Seq
CTTTTGGTCTCTCCTTCCAGCCA
3' ss Score
9.82
Exon sequences
Seq C1 exon
AACCTGTAAAATGTAAGGCTCCAGAAAATCCAGAAAATGGCCACTCTTCTGGTGAGATTTACACCGTGGGTACTGCAGTCACATTTTCCTGTGACGAAGGGCACGAGCTGGTGGGAGTGAGCACCATCACGTGTTTGGAGACTGGCGAGTGGGATCGCCTCAGGCCGTCCTGTGAAG
Seq A exon
GTACGCTGAGAAAATGGCCATGCTCACTGGACTGGGTGGTTCTAAAAAGACGAAATCGTTGGTGCAGTAAGCTCCAGGTCATGCCAGTCTTTGTTCTGAAAGTCAGGAATCAGGCTCAAGTTTAAACATGACAAGGGGATAAAATCTGGAAGCCATAAGCTTTCAGAGGGCTTTGCACAGTTACACCACACTTTTGGTCTCTCCTTCCAG
Seq C2 exon
CCATTTCCTGTGGTGTCCCACCTGTTCCTGAAAATGGTGGTGTTGACGGGTCGGCATTCACATACGGCAGTAAGGTGGTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028369:ENSMUST00000042850:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=90.0)
A:
NA
C2:
PF0008415=Sushi=PU(46.3=86.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGTAAAATGTAAGGCTCCAGA
R:
CTGTACACCACCTTACTGCCG
Band lengths:
261-471
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