MmuINT0092403 @ mm9
Intron Retention
Gene
ENSMUSG00000040249 | Lrp1
Description
low density lipoprotein receptor-related protein 1 [Source:MGI Symbol;Acc:MGI:96828]
Coordinates
chr10:127008945-127009622:-
Coord C1 exon
chr10:127009473-127009622
Coord A exon
chr10:127009086-127009472
Coord C2 exon
chr10:127008945-127009085
Length
387 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
ATTCCCTCCTGTTGCCCCAGGGG
3' ss Score
8.91
Exon sequences
Seq C1 exon
GGTTGGCCATTGACTTCCCTGAGAGCAAACTCTACTGGATCAGCTCTGGGAACCACACAATCAACCGTTGCAATCTGGATGGGAGCGAGCTGGAGGTCATCGACACCATGCGGAGCCAGCTGGGCAAGGCCACTGCCCTGGCCATCATGG
Seq A exon
GTGAGGGCTCGGGTGGAAGGAGGGATGGAAGGAGAGCAGGCTAGGCACAGCTGAACAGGTGATGGGGGAGATCCTGAAGGCCACTTTCCACCCCCTGCAAGCCTAATGACTTCTGCAAGAGAGCTGGGGGGGCTAGAGAGATGGCTCAGTGGTTGAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGCAATTAGATCCGATGACCTCTTCTGGAGTGTCTGAAGACAGCAACAGTGTACTTACATATAATAAATAAATCTTAATTTAAAAAAAAAATCTATATTTAAAAGAAAAAGAGGACTAGGAAAGAGCCTTCCCAAGAGTCTTATTCCCTCCTGTTGCCCCAG
Seq C2 exon
GGGACAAGCTGTGGTGGGCAGATCAGGTGTCAGAGAAGATGGGCACGTGCAACAAAGCCGATGGCTCTGGGTCCGTGGTGCTGCGGAACAGTACCACGTTGGTTATGCACATGAAGGTGTATGACGAGAGCATCCAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040249-Lrp1:NM_008512:32
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:
PF0005812=Ldl_recept_b=PD(13.2=9.8)
A:
NA
C2:
NO
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:
GTTGGCCATTGACTTCCCTGA
R:
GCTGGATGCTCTCGTCATACA
Band lengths:
287-674
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: