MmuINT0155434 @ 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
chr4:58099943-58100876:-
Coord C1 exon
chr4:58100763-58100876
Coord A exon
chr4:58100145-58100762
Coord C2 exon
chr4:58099943-58100144
Length
618 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TCATCCTCTCCCATCCCCAGGTG
3' ss Score
11.76
Exon sequences
Seq C1 exon
GTCAAATATGTGAAGAAAATATAAATGAGTGTATCTCCAGCCCTTGCTTAAATAAAGGAACCTGCACTGACGGCTTGGCAAGCTACCGCTGTACCTGTGTGAAAGGATACATGG
Seq A exon
GTAAGACGTTTGCGTTTCTTTCCTTTCTCTAAAGTTCTGTAAATAAAGATTACTGTATTGACTAATTAATATATCATCTAAATATTATGTTATATAGTACAATATCTAAATGAATATAATATCTAAATATTATATTTGAAGTTTATGAATATACTGTTGGAGATAAGTCATGTAAATGGCATTCATAAAATGAATGTAAGTGATGCAAAATAATATATTTTACAAACTGATGAGAGAAATATGGTTAAAGAAATAAGTACTTAATTGTTAGGGAATAAATCTGAGAGGGGAAAAATGCTAGGGAAGAAAATACATGAGGCCAAAAAAAAAAAAAAAAAAAAAAAACCAAGAAAAAAAACCAGAACTAAATTTATCATCCTTTCGAACATTATTTTAGCTCCACGTCCATTGCTAAGCATAATGTAGAAGAAAGATAAAGTGAGCTAAGAATTGAAACTGCAGAATCCAGAAACGACTCAGCAAAATGCGAGTCATCTAGATGCAGCAAGCTGCGTCTAGAGCAGGTTTAGTGGCAGTGGTTCTGCCAAGGAGTCACATGTGGCTTGTTTTCCTCTGAGGGAACCATCCCAACTCTCTCTCATCCTCTCCCATCCCCAG
Seq C2 exon
GTGTGCACTGTGAAACAGACGTCAATGAATGCCAGTCAAGCCCCTGCTTAAACAACGCAGTTTGTAAAGACCAAGTTGGGGGGTTCTCATGCAAATGCCCACCCGGATTTTTGGGTACTCGGTGTGAAAAAAATGTGGATGAGTGTCTCAGTCAGCCATGCCAAAATGGAGCCACTTGTAAGGATGGTGCCAACAGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028369:ENSMUST00000042850:23
Average complexity
IR
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=PD(6.5=5.1),PF0000822=EGF=PU(92.1=89.7)
A:
NA
C2:
PF0000822=EGF=PD(5.3=2.9),PF0764510=EGF_CA=WD(100=57.4),PF0000822=EGF=PU(61.3=27.9)
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:
AAATGAGTGTATCTCCAGCCCT
R:
CTGAAGCTGTTGGCACCATCC
Band lengths:
294-912
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