MmuINT1032507 @ 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
chr4:58042442-58044056:-
Coord C1 exon
chr4:58043963-58044056
Coord A exon
chr4:58043169-58043962
Coord C2 exon
chr4:58042442-58043168
Length
794 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTTTCGTTTTCTGTCTTCAGGAA
3' ss Score
11.87
Exon sequences
Seq C1 exon
CTACTTGTCAGTCCCCCTGCTTAAATGGCGGGAAATGCATAAGACCAAACCGATGCCATTGTCTCTCAGCCTGGACAGGACATGATTGTTCCAG
Seq A exon
GTAAGACAACCCAACACAGAGGCTGAGCTGTAACTCTTGGACTTTACTTCAGGAGTGGGAGGGTGGAATTCAAGAGACATCTCCAGAGATAGAAGGTATCTCTAGGTGGAGTAGACTTTGTTAATCACAGGCTATCTAGATAGTCTCTCGAAACCTTCGATAAACCCAAAGCGAGAAATAATTAAGTCAAGATTGACACAGAAGACAAGCTCTCAAAAATAAATGGTATTGAGTACACACACACACTAAATAAATACTAAAAATAAGTAAAAAATTTATGTAAATGATAAAAGTAATATTCTTGAACAGAAAATGCAAAATCAACAATATAGTTCATTGAAAATGTCCTAGTAAGGTCTGGTACAATGGTGCATACCTTTAACCCAAGCACTCCGTAGGGAAAACAGAAGGGTCTCTGTGGGTTTTCGACCAGCTAGGGCTGTATTGTAAAACCCTGTCTCAAAGAAGGAAAGGAAGGAAGGAAGGAAGGGAGGGAGGGAGGGAGGGAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGGAAAACATGCCCAGCCAATGTTTGAGCTATATAACCACAGTAAAACTATCAAAGTTGACAAAAATGTTTAGTAATATTTTAATATTTCCCCTTACAGACGTGCCTACTAGACTAAGATTTATTGCCCTCTTTTCCATGAGCACCCCCAAAATTTCCCCCTATCTCAGTGCATCTTTCCTCTTGGGCCTGTTGATTTTATGTTGTCTTTCGTTTTCTGTCTTCAG
Seq C2 exon
GAAAAGGAGAGCCGGGCTTTGATCTCATGCCCCACCCCCTCTCCCTAAGCAGCATCATCTCCTTCCGGTAGCTCCTGGGACTCCCACCAAGAAAGACCAACGCGGTGCTGGGGCTTGTTTGGTTTTATAAGCTTGAGGTTGACTTTTTAATTTTGTGATCTATTTTGTTAAATTTTTTTGTGACGTCCTTTCTTACATGTGTGCGTTGTTTAAATATGCTTGCATTTTCTATATAAAATTTATATTAAACGGACGCACTTCATCCTCACCAGATGTACATACTCTGCTGTCTGCTGGGAAAGCCCCTGGAATACATTTTTATTCAATTACTTAAAGATGACTTTCCATTAAAATATATTTTGCTACTAAATAAGATTTTTGCTGGGTTAGTACCATTTTTCCAAGGTGGCTGGGGAACAAAGAAAAGAACCCACGATGTTCCTTCGAATCCTCTGGCACCGCACATGACTGCCTGCGGTACACTGGACAGTTACGATAAAGAAGCCCCTCCGTTAGTCCTGTCTTGTTTACACAGTGTGTGGCTGTAAAGGCTTTCTTTCTTCATTAAAGGAACTTGAGTTGGACTTAGTGCCCCCACTAAGAAGTCTGTCCTGGTGTTGAGAGTGACTTGGAGGGTCCTTTCCCACATTTGGAAATCTGTAGACATCAACTTGGGGGTGGGGTGGAGGGATCACGATTTATAAGTAAATGTACTCTAAAAAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028369:ENSMUST00000042850:47
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079748=EGF_2=WD(100=87.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTCCCCCTGCTTAAATGGC
R:
CTGGTGAGGATGAAGTGCGTC
Band lengths:
358-1152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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