MmuINT0092446 @ mm10
Intron Retention
Gene
ENSMUSG00000040249 | Lrp1
Description
low density lipoprotein receptor-related protein 1 [Source:MGI Symbol;Acc:MGI:96828]
Coordinates
chr10:127546394-127546956:-
Coord C1 exon
chr10:127546837-127546956
Coord A exon
chr10:127546517-127546836
Coord C2 exon
chr10:127546394-127546516
Length
320 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
CTGTCTCCTGGCTTCTACAGCCC
3' ss Score
9.59
Exon sequences
Seq C1 exon
TGAGGACCTGCCCATTGGATGAGTTTCAATGTAACAACACCTTGTGCAAGCCGCTGGCCTGGAAGTGTGATGGAGAGGACGACTGTGGGGACAACTCAGATGAGAACCCCGAGGAATGCG
Seq A exon
GTGAGATGTAGGGAGGCGGGGGGCTGGAGAGATGGCTTGGAGGTTGGAGGTTAAGCGCACTGGCCGCTCTTCCAAAGATCCTGAGTTCAATTCCCAGCAACTGCATGGTGGCTCATGACAATCTGGAATGGGATCTGGTGCCCTCTTCTGGTGTATCTGAAGACAGCAACAGTGTACTCATACAAATAAATTAGATTTAAGATTAGGGGTCATCCACAGCAAGGATGCTGGAGACCTGGCTTCTATACTCCCCAGTGGCCAGCTCTTCCCTACCACTTGCCCCCAACACTGATTGTGGCTCTGTCTCCTGGCTTCTACAG
Seq C2 exon
CCCGGTTCATCTGCCCTCCCAACCGGCCTTTCCGCTGCAAGAATGACCGAGTCTGCCTGTGGATTGGGCGCCAGTGTGATGGCGTGGACAACTGTGGAGATGGGACTGACGAGGAGGACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040249:ENSMUST00000049149:71
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:
PF0005713=Ldl_recept_a=WD(100=95.1)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=90.5)
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:
GACCTGCCCATTGGATGAGTT
R:
CACAGTCCTCCTCGTCAGTCC
Band lengths:
239-559
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