MmuINT0092591 @ mm9
Intron Retention
Gene
ENSMUSG00000027070 | Lrp2
Description
low density lipoprotein receptor-related protein 2 [Source:MGI Symbol;Acc:MGI:95794]
Coordinates
chr2:69343138-69344813:-
Coord C1 exon
chr2:69344436-69344813
Coord A exon
chr2:69343387-69344435
Coord C2 exon
chr2:69343138-69343386
Length
1049 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CCCGTGACTCTTTCCTGTAGATC
3' ss Score
10.57
Exon sequences
Seq C1 exon
CGACCAGGCCTCCTGGTATGTGCCACCCAGATGAGTTTCAGTGCCAGGGAGATGGTACCTGCATCCCTAACACCTGGGAGTGTGATGGGCACCCGGACTGTATCCAGGGCTCGGATGAACACAACGGCTGTGTTCCTAAGACCTGCTCCCCGTCTCATTTCCTCTGTGACAATGGAAACTGCATCTACAACTCGTGGGTCTGTGATGGGGACAATGATTGCAGGGACATGAGTGATGAGAAGGACTGTCCTACCCAGCCTTTTCACTGTCCTAGCTCACAGTGGCAGTGCCCAGGCTACAGCATCTGTGTCAATCTGAGCGCCCTGTGTGACGGCGTCTTTGACTGTCCCAATGGGACCGATGAGTCCCCGCTTTGCA
Seq A exon
GTAAGTTCCCTGATCACAGTTTGCTGGACACAAATTTATTCTGAACAGTAGATGGCTGTACCCCAGCACTGTCACAGACCCCATATAGTATTTTGGGAAGGGGATTTTTAGTTCCTCTGTGACTTTATATCCCTGTAGGAGTAACTATAAATTCCAATAAATGATGACTGCATAACACTTCTCATTAATATCTCTTTACTTGTGTCTGTGGCTTCTCTTCTCTTTATGTCACTGTTCAGGATATCATATCAAATCAAGTATAACTCTCTTAGTAATGTGTCCATAAACTTTACTAACTTGAAGATTTTCTAATTTTAATCGGAACTTGTCATAGAACCGATGAAACCCAGGGGGTTGTGTTTGCAGTGATTAAAATGCTCCGATTGGCATGTAATCCTAACTACTGTCCTCTCTCTCTTTCCTCTTTATTAACGCTCACTCTCAGATGAACCACAGCAAGGTATGACTGTGAATATTCTAGACCTTTATGATTTCACATGTGTCATGTGTATGCTGACACGGTACTAATTACTGTGACCTCCCCTTCTAGTGCGTGTTCTGTGTTTTGGCTCTTTACCCATAAGTTACGGTGCTCCTGGCAATAGGGAGTATTTCATACCCAGTATATGACCTGGCTTTGGGCTGCTTCTGCCATTGCCACGATGGCCCTAAGAGTAAGGAATGATGGGTGTGTTTAGCAAATTGTGTCCTCTCCAGTTGATCACTTCCAGCTTTTCCTGCAAAACATTTCTAGTTAGGCTGGAGAAGTTCAGAGGGAGCACATTAGATTTCTCTGCTTCATCGGTGACAGTTTGGTTTCTTGATGCCAGCATTAATCTCTCAAGGTTCTCTAACAGCCATAAATGGAGCTATATGGGAGGGTGGTTGTATCCTATAGCTTCAGGCAATTCAGAGAAGACAAGTTGAACAGCTCACCCAAGAGATTGGGGCTCTTAATTAACTCTCATTAAAGTAGGCATGTAACTACATTGGAGTGAGTAAAAAAAGCAAGGATGTCTGACTTTTCACCCCGTGACTCTTTCCTGTAG
Seq C2 exon
ATCAAGACAGCTGCTTACATTTTAATGGTGGCTGTACTCACCGGTGCATACAAGGGCCCTTTGGAGCCACCTGCGTGTGTCCAATAGGATACCAACTTGCCAATGATACCAAGACCTGTGAAGATGTAAATGAGTGTGATATTCCAGGCTTTTGCAGCCAGCACTGTGTCAACATGAGAGGGTCCTTCCGGTGCGCTTGTGACCCAGAATATACATTGGAAAGTGATGGGCGGACTTGCAAAGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027070-Lrp2:NM_001081088:25
Average complexity
IR-C
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=30.7),PF0005713=Ldl_recept_a=WD(100=29.1),PF0005713=Ldl_recept_a=PU(88.4=29.9)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(9.3=4.8),PF146701=FXa_inhibition=WD(100=42.9),PF146701=FXa_inhibition=WD(100=41.7)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGCTGTGTTCCTAAGACCT
R:
CCTATTGGACACACGCAGGTG
Band lengths:
343-1392
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: