MmuINT0092639 @ mm9
Intron Retention
Gene
ENSMUSG00000027070 | Lrp2
Description
low density lipoprotein receptor-related protein 2 [Source:MGI Symbol;Acc:MGI:95794]
Coordinates
chr2:69274625-69275700:-
Coord C1 exon
chr2:69275480-69275700
Coord A exon
chr2:69274802-69275479
Coord C2 exon
chr2:69274625-69274801
Length
678 bp
Sequences
Splice sites
5' ss Seq
ATGGTTAGC
5' ss Score
3.16
3' ss Seq
TCTCCACTATTGCTATGCAGCAA
3' ss Score
5.8
Exon sequences
Seq C1 exon
GCTCATGTTCTGGACTGACCAGGGAAAGCAGCCTAAAATTGAGTCTGCCTGGATGAATGGGGAGCACCGCAGTGTTCTGGCTTCTGCGAACCTTGGCTGGCCAAATGGTCTTTCCATAGATTACCTGAATGGTGATCGAATCTATTGGAGTGACTCCAAAGAAGATGTTATTGAAAGCATAAAATACGATGGGACTGACAGGAGACTCATCATAAACGATG
Seq A exon
GTTAGCAGTTAGCTAGGATTTGCATATCAGTAATGTTCTAATGTATTTCTGCAGTGTCTTAGGATAGGGGATAGGGTTTATGTAATCCCGCAGATTTGTTTCCATCAGCACCCAGCTGCTGTATTGAATCCAAACTAATTCACAACAATAATCCTTTTTATATTTTTACTGATCAAATCAAGAAAGAACTAAGGTTTCTGCTAGGCTCCTCTGAGATTGTGTTTTCCATATGTTAAGTCAGGTGTGTTCTTACTAATATGCATAAACTGCTTCTAGACTTATTCATTTTCCACGTGCTAGCCTGTTCTCACTTTCCATGTGCTTGCCTGTCCTTGTGCTCAACTAGAAACATGTAGAATGGAGTATTTTGTTACAGACATCTAATAATCGAGTACCTACCAGTACCTTTCTCCTAACTGGCCGGTATGCTCTTACATTCAAAGTGGGAGATGGGGAGGGGCTTTAGTTCATCACATGGTGATAAATCAGCAGCTTAAAGTCAGCCCATTTATACGGACTCAGTTTAATTTATCTTGAACTCTCGAGGTAACACCTCCAGAAAGTCTGCCCAAAATATGCTAGATAATTACTTGGAGCCAAATGCCAATGGGCACAGTTAGTAGTGCTGGGTATTGTGTCTCATTAGCTCTCTTTTGTCTCTCCACTATTGCTATGCAG
Seq C2 exon
CAATGAAGCCCTTCAGTCTGGACATCTTTGAAGACCAGCTCTACTGGGTAGCTAAGGAAAAGGGAGAAGTGTGGAGACAAAATAAATTTGGGAAAGGGAACAAAGAGAAATTGCTGGTGGTGAACCCCTGGCTCACTCAAGTCCGCATCTTCCATCAACTGAGATACAACCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027070-Lrp2:NM_001081088:69
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=56.0),PF0005812=Ldl_recept_b=PU(72.5=38.7)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(25.0=16.7),PF146701=FXa_inhibition=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACCAGGGAAAGCAGCCTAA
R:
AAGATGCGGACTTGAGTGAGC
Band lengths:
357-1035
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: