MmuINT0092406 @ mm10
Intron Retention
Gene
ENSMUSG00000040249 | Lrp1
Description
low density lipoprotein receptor-related protein 1 [Source:MGI Symbol;Acc:MGI:96828]
Coordinates
chr10:127568899-127569415:-
Coord C1 exon
chr10:127569284-127569415
Coord A exon
chr10:127569034-127569283
Coord C2 exon
chr10:127568899-127569033
Length
250 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
GTCTGCCCCTCTGCTTCCAGAAA
3' ss Score
10.09
Exon sequences
Seq C1 exon
GTGTGGGCTCTTTTCTCCTGTACTCTGTACATGAGGGAATTCGGGGGATTCCACTAGATCCCAATGACAAGTCGGATGCCCTGGTCCCAGTGTCCGGAACTTCACTGGCTGTCGGAATCGACTTCCATGCCG
Seq A exon
GTGAGCTATTGTCCCGGGGATTAGTCAGCATGCCCCAGTAGTTTATGGGAGTGACACATTAAAGTCCTAGAAGGGCTGCCTGTACTGACTGTAGCAGCTGCCTCACTCCTTCCTGCTGCCTCCCCACTTCCAAGAAAGCACCCGGCACCCACAGCCCCCATTCGGTGCTATCCTGACCCTCCTCGTGATTTGACCCTTTGCCTTGCCTCTGCATTGAGGGGCATTCTCATGTCTGCCCCTCTGCTTCCAG
Seq C2 exon
AAAATGACACTATTTATTGGGTGGATATGGGCCTAAGCACCATCAGCAGGGCCAAGCGTGACCAGACATGGCGAGAGGATGTGGTGACCAACGGTATTGGCCGTGTGGAGGGCATCGCGGTGGACTGGATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040249:ENSMUST00000049149:35
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:
NO
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=89.1),PF0005812=Ldl_recept_b=PU(0.1=0.0)
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:
GTGTGGGCTCTTTTCTCCTGT
R:
GATCCAGTCCACCGCGATG
Band lengths:
263-513
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