MmuINT0155458 @ mm9
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
chr4:58059414-58061078:-
Coord C1 exon
chr4:58060983-58061078
Coord A exon
chr4:58059510-58060982
Coord C2 exon
chr4:58059414-58059509
Length
1473 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
TTTTTGTTTTGTTCTTTTAGCAA
3' ss Score
9.58
Exon sequences
Seq C1 exon
CTGTCTGTCGGTTCCCATGTCAGAATGGAGGTGTCTGTCAACGTCCAAATGCTTGCTCATGCCCAGACGGCTGGATGGGACGTCTCTGTGAAGAGC
Seq A exon
GTGAGTCTGTCCTGGAATGTTGCTTTGAGTCCCTTTATTTGCTGAGACGAGACGCTGCAGGCTTAAGGGAGACAGTTCCTGGGGATTGCCTTTGCTGTCCGAGGAACGGATTACCTCAAATCCTTGCAGCGGATCAGAGCGCACAGGGCTACTCTAACACATCAATAGGTTGCAGAAGATCATCTACAACATCTACACCTGAGTGTGCAGTTGTCTCCTTTAACGTCTCATGAGACTCTTGGCCCTCAGTAACTGAGTCTTCTTAGGAAGGGGCTTTGTGATTTTGTTGCAGCCGCAGCCTTTGCTACAGTTAGAAAAACTGTGCCAATGTCACAGAGCACTGAGCCTTTCAGGGAATATGTGAGCCCACCATGGCTCTTAGTCATGAGAAAGCCACTCCTAATTAAGAATATAGGGGAAGTCACAAGCCCTAAGCTATACAACGCTTAATAAATGAACAGAATTTTGATCCTTACTTAAACTATGCTTAGTTTATCAAAGGTGAATAAATAGCTACTCTGCATGTTTTATTTGATTATCTGTGCCCATGCATGTGCCAGGGCAGAGGACAACTTCCAGGAGTTGGTTCTCTCCTTCCACCAAGGGTCCTGGGGATCAATCTCAGTCATCCGGTTTGCTTCGCAAGTGCTTTTCCCCACCGAGCTCTCTGGATGGCCCTCAGTGAATTCTTGTAAATGATTTGACTGTCTAAAGTGTGTTATTCCAATGTCTTCATGTGTAAGGATAAACAGTTTCATGTATGGAGAGGCCATGCTGAGTCGTTGGTGTGACAGGAGTCAGGTTACACCTGCTGCGCTCTTTACCTGATGAACACAAGGCCAACTCTAAAACGTATTCAATCTGACTTTCTCATCTGTTTTTTTGCATAGAAGCATCTTGGAGAGGCTTTAAGATGTAGATAGATTCTGGTTCAGTCAACCAAAGATGGGACGTGAGAGTCTGTGCTTCTAACCAGTTCCTAGTTCATGCAAGGCAACATTTTCACATGTTCAACATCAGCCCTCAGCTCCTAGGAAATCAGAGGGAGTTGTCCTACAAGAGCCAATGCAACAGCCCAACCAACTCCCATTCCCACGTCAGTTCAAGAAGAAAGCCTAAGGCAGCAGTTTACACACTTCTGAAAAAGAATATGGAGTTTATGCTGCTTCTGTTACAAAGACTGGAAGCAAAGCAGTTAGCAAGCACTGAGGGACCCGGTGCCCTCCAGGACAGAGTGCTTTTGGCCTCAGTGGTTACATCTGAGTGAGGATGAGACTTCCACCCTGGTGTGCTTTCCCAGTGATAACTCATTCACAAGCAAAGTGCATACAGAAGATCCTCTAGTGAGCCATTGCAAAGTGTCTCCTCCAGTAAAATGGATTGTGAACACCTGAGCAGATCTGAACATGATAAATCCTTTTCAACACAGTTTTAATGTGTTTTTTTAATTCTGTTTTTGTTTTGTTCTTTTAG
Seq C2 exon
CAATATGCATACTCCCCTGTTTGAATGGTGGGCGCTGTGTGGCCCCTTATCAGTGTGACTGCCCCACAGGCTGGACTGGGTCCCGCTGTCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028369-Svep1:NM_022814:45
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PU(9.4=9.1)
A:
NA
C2:
PF0000822=EGF=PD(87.5=84.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCTGTCGGTTCCCATGTC
R:
GTATGACAGCGGGACCCAGTC
Band lengths:
190-1663
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: