MmuINT0092629 @ mm9
Intron Retention
Gene
ENSMUSG00000027070 | Lrp2
Description
low density lipoprotein receptor-related protein 2 [Source:MGI Symbol;Acc:MGI:95794]
Coordinates
chr2:69374042-69375685:-
Coord C1 exon
chr2:69375572-69375685
Coord A exon
chr2:69374159-69375571
Coord C2 exon
chr2:69374042-69374158
Length
1413 bp
Sequences
Splice sites
5' ss Seq
GCAGTACGG
5' ss Score
2.11
3' ss Seq
GCTCTGTTGCTCTCTTCCAGACT
3' ss Score
9.63
Exon sequences
Seq C1 exon
CTACGCTGTGTTCGCAAAAAGAATTCCAATGTGGCAGTGGAGAGTGCATCCTTCGTGCCTATGTCTGTGACCATGACAATGACTGTGAAGATAACAGCGATGAGCACAATTGCA
Seq A exon
GTACGGTGATTTTTCTCTTATGCTGGGTCATGTGATAAGATGTGATAAGGGAGGGGTACTTTCCTCTCCCTTATACTAACATACCACTTTTTTTTTTTTTTTTTTGTCTCAAAGAAGTTTCTGTTTGGCAGAAGAAGCCAAAAGTTAATGGAGGAGCTACTGCTCCAAGCTTATTAGTATTGTGTGACCTGCATCCCCTTATCCTTATCCTCTAGGGATCATAGTAGAAGTGAAGAGTTGTCAGCTTGCATTCTTCCCTACATCCTTTGTGACAGTGTCACAATATGTCACAGGACTCTGATCTTTTAATTTTTTAATTTTTTTTTTTTATTTTTGGGTTTTCGAGGCAGGATTTCCTTGTGTCGTTCTGGCTGTCCTGGAACTCACTCTGCCTGGCCTTGAACTCAGAGATCTACCCTCCTCTGCCTCCCGAATGCTGAGATTAAAGGTGTTGCCCACTACCACACAGTGGAGACTCTGATCTTGACAGTAGCTCCAATTTCTGCTTTGATTGACTGATGCCTCATCTCTCTGTTTTTCTGGGAGCTAGGTCTTAGAACCTGGGCATTATTTCAGTGAGTGAAATAAAAAGATGGAGGCATCATGGAGTGGGTGACTAGGAGTGTTTTGGTGCAGATGAGAGTTACAATGCTTCTTTTTCCTCCTTTTTCTCTTCCTTCTCTCCTCCTCTTCCTTTTCTTCTTCACGTTTGTCAAGATACTAATGCTCCAACCGATGCAGATGCTTCAGTTCCCAGGATGCAGTGCAGGCAGGATGAACACTTTGATTCCCGCCCCCACCCCCAACCCCACCCCCACCCCCAGACTGTGCCTTTGCAGTGCTCATGTTGCATGCAATTTTAAAAACCTGCTTGCTCGCTCTCTTTCTTGAGAGCTCTTTCCACCCTCCCCGCTAGGCCCTGTGATCAGCAGACCCCAGCCTCACTCAGCTCTGCCAATTGCCAGCTGATGTTTTTTCCTTGAAAGCTGGGAGCTGCATTGCTCTCCGTCAGCCAACAACACCCTGCAGCTAGCTGCAGCCAATGACCGCCCCGGCTGTGCCCTTTCTCCTGCCCACCTTAGTCACCGGGGATGGAAAACACGAGACAGCCTTAACATTTTAAAACTAGCTAGATAACTCAATGGTTGTGAAGAATACCCAGTCCCATCCTTCTTGGCCTCCACCTCCACCACCGGCAGAGGCCCCAGGACCTACATGACTGTTGCTTCCTCCACTATACTGCCCGCTCTGAATCCTCATTCGCATCGCCTTTCTTCTATCTCCCCAGGGACCAGGAAGCCCCACCTTTCCACTTTGTCCAGAGACTGGACTCCTTCCTTTTTTATTGACACAACCAAGAAGCAATTAGGGAAACAATACCTGCACCTACAGTGCTCTGTTGCTCTCTTCCAG
Seq C2 exon
ACTATGACACCTGCGGAGGCCACCAGTTCACTTGCTCCAATGGCCAGTGCATTAACCAGAACTGGGTTTGTGATGGGGACGATGATTGCCAGGATTCTGGTGATGAGGATGGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027070-Lrp2:NM_001081088:6
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:
PF0005713=Ldl_recept_a=WD(100=94.9)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACGCTGTGTTCGCAAAAAGA
R:
ACAGCCATCCTCATCACCAGA
Band lengths:
230-1643
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: