MmuINT0155455 @ 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
chr4:58053119-58054712:-
Coord C1 exon
chr4:58054539-58054712
Coord A exon
chr4:58053296-58054538
Coord C2 exon
chr4:58053119-58053295
Length
1243 bp
Sequences
Splice sites
5' ss Seq
AACGTGTGT
5' ss Score
3.87
3' ss Seq
ATCTGCCTTGTCTTTTACAGCAA
3' ss Score
11.15
Exon sequences
Seq C1 exon
AGAACAGATGTGAGACTCCAGCTGAGTTTCCCAATGGGAAGGCTGTCTTGGAAAACACCACATCTGGACCCAGCCTTCTGTTTTCCTGTCACAGAGGCTACACCCTGGAAGGGTCCCCCGAGGCACACTGCACTGCAAATGGAACCTGGAATCACCTGACTCCCCTCTGCAAAC
Seq A exon
GTGTGTGTTGACTTTAGGGGCTGGTTTTAATCACATTCCACTTCACAATAGCTTCACACTTATCTCTGCTTGAAGGGGAAATACCAATAAATGGGACTGGTCCAGGAAACCCAATTTTATGGGATATTTTATATCAAAAGTCTCTCAATATTTGATGAGAGACTTTGGAGTTCTCAATATTTGGAGTTCAACAGAATTTACCATGCTGTTGGCACTCATCAAATATTGAGAGACTTAAAACTTATAATATGTTATAACCACCTGTCTTAGAGTCTGCTTTTATTAGATTCCTCCACTGATTAAACTCAGGCATTAAGAGAAAATACAAATTAATGAAAACATTTTGAAATGAAGATATGGTGAATTCTATTGATGTGAAGAAAGGGGGTGAAAAGAAAGAAGATATGGTTAAAGTCTAATGTTAACATAAAACATGTAAATATGGTAAATAAAGATAATCTGACCACTTAAATGAAAACCATACAAACGGAATCTAACTTGAGAAGGCTTCTGACTAGTCAGAATACTGACTAGTGTCTAAAGTACTGTAGCGCATGAATGGAGCCTTTCGAATCCAGAAGAGCCCTACTTTAGCAAGACTTATTTATACCCACTTAAAAGCAGAAAAACTGAAATAGCTTGAAGCCCGTGTCAGTATGTGTGACAAAGTCTTGCTCTGAGCAAAATCGAGCACTAGCAACACTGCCTGTGTTTCCTTCTAAGCTGTGGAAACATCCTGTCTTTACCATCAGGCCCACAAACACAACATGAGGTCCTATCACTCTGCTCCCCACGGTACAGGTCTAAAATCAGGCTTGCCCTGCAAGCCAATGTCTGATGCTTCTCCACTCCCATCCTCTCTGAAGGATAGTCAGTAAAAGGATGGAGTGCAATAGAATTTACTATGCCGTTGGCACTCATCAAATATTGAGAAACTGTTCAGTGTGGCCCTTGATTTCTTAGATGCCTGATATTTAATCTTCACAAATCATTTCATATGGATTGAAAGTAAACCTGTGCCTATGTTTAAAGTTCTAAATGGTTAAACACTTTGCTGGGCATGGTGGGATTGAGTCAGGAGGGGATGAGTTTGAGGCCAGGCTTTTCCATTATCATTTTAAGATTCGTATTATTATTATCATTGAGGACCCATGCTCTGCAGGCCTCTAGTTTGTCTGTAAAGAGATACATTAGGAAAAGAGAAGGCAGGCAGCTCAGTGAGTATCTGCCTTGTCTTTTACAG
Seq C2 exon
CAAATCCATGCCCTGTCCCTTTTGTGATTCCTGAGAACGCCGTCCTTTCTGAAAAAGAGTTTTATGTCGACCAGAATGTATCTATCAAGTGCAGGGAAGGCTTCCTGCTCAAAGGCAATGGTGTCATCACGTGCAGCCCTGACGAGACATGGACGCACACCAATGCCAGATGTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028369:ENSMUST00000042850:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.7)
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:
ACAGATGTGAGACTCCAGCTGA
R:
TCACATCTGGCATTGGTGTGC
Band lengths:
346-1589
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