MmuINT0155442 @ 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
chr4:58088218-58089522:-
Coord C1 exon
chr4:58089352-58089522
Coord A exon
chr4:58088392-58089351
Coord C2 exon
chr4:58088218-58088391
Length
960 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGC
5' ss Score
6.06
3' ss Seq
TCCTTGCCGTCCTGTTCCAGGCA
3' ss Score
9.94
Exon sequences
Seq C1 exon
ATTGTCCGTCTTTAGAAGGATCCGTGCCTCACCTGAGACCTGCATCAGGAAATCGAAAGCCAGGCTCCAAAGTCAGTCTGTTCTGTGATCCGGGCTTCCAGATGGTTGGGAATCCTGTGCAGTATTGTCTGAACCAAGGGCAGTGGACACAACCACTCCCCCACTGTGAAC
Seq A exon
GTGAGCAACCTATTGTTCAACCTACTTGGTGGCTCTGGAAAGCTATGGGACCCAGATGAGAACTTGGGGAATGCTAGACAGATGCTCATCATGTACTGCCACAAACACAGCAGATGCCCAGTCTGTGCCCCGGCCCTAAGAGACTGAGCCAGGCACCATGCGGGACGTGGGTGATGAGGATGCAAAAAGACTCCTGACAAATGCATCTGAGGTGCTGGCAAGGAACTCGAGACAAGTGGAATAAGGACCCTGTAGGGTGGAGAGCCACCCTGAGCTGTGCCATTGCTGGATGAGGAAAGGGAGACAGGTGTCTTAAGCTGGATGTCTCTACTCATTCATTAACTCAACAAGTTTTAGCCGCACATTGATACATGTTCTAAAGATGCTGGCCCTGTTCTCATCTTTACATGTTGGGAGAAGAGACAGGAGAGGAAAGATGTATCTAGTAATACTTATTTATAATGAATAATAATGATGAAGGCCAGAAAGCTACTAAGCAAGCAGCAGGGGCAGGGGCATGAAGCGAGGAGATTTGCAAGACTACTGCCATAAATAGACAATAGCAGCTATCACCTGACACAGCATCCATTTATCTTCTTGTCTGTCCACCTCACTGGGCAGGAAGCACCACAAAGCAGGAGTTCCATCTATTCAGTTCACTGCTGTAAGCCCAGCACCTAGAACATTGCTTAATCGGCAGTAAGAATGCCATAGATGGCTTTTGGATGAATGAATGAATGAATGAATGAATGACATGCCTACTGTGAACCAGACAATGTGCCACATGCTGGGAGCGCATGTGTGGCAAGCAGCGTAGAACACTCTGGTTACTAATATTTGTATACAGTAGGAAAAGGGCAGCTACCTAAGGCAACTCCCATGGAACTAGGTTCATGCAAGCAAGATGCTCTTTGAGCACTTTGCTCTACCTGCAGTTGTGTCCTTGCCGTCCTGTTCCAG
Seq C2 exon
GCATTCGCTGTGGGCTGCCTCCCGCCTTGGAGAATGGCTTCTACTCAGCCGAGGACTTCCATGCGGGCAGCACGGTGACCTATCAGTGCACCAGTGGCTACTACCTGCTGGGTGATTCCCGAATGTTCTGCACAGACAACGGGAGCTGGAACGGCATTTCACCATCCTGTCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028369:ENSMUST00000042850:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PD(94.8=94.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.5),PF0764510=EGF_CA=PU(0.1=0.0)
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:
CCGTCTTTAGAAGGATCCGTGC
R:
AGGATGGTGAAATGCCGTTCC
Band lengths:
334-1294
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