MmuINT0092706 @ mm9
Intron Retention
Gene
ENSMUSG00000024913 | Lrp5
Description
low density lipoprotein receptor-related protein 5 [Source:MGI Symbol;Acc:MGI:1278315]
Coordinates
chr19:3610039-3612521:-
Coord C1 exon
chr19:3612198-3612521
Coord A exon
chr19:3610239-3612197
Coord C2 exon
chr19:3610039-3610238
Length
1959 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
GTCTGTTTGTCCCACTCCAGCGC
3' ss Score
7.47
Exon sequences
Seq C1 exon
GTCAGGAGCGCATGGTGATAGCTGACGATCTGCCCTACCCGTTTGGCCTGACTCAATATAGCGATTACATCTACTGGACTGACTGGAACCTGCATAGCATTGAACGGGCGGACAAGACCAGTGGGCGGAACCGCACCCTCATCCAGGGTCACCTGGACTTCGTCATGGACATCCTGGTGTTCCACTCCTCCCGTCAGGATGGCCTCAACGACTGCGTGCACAGCAATGGCCAGTGTGGGCAGCTGTGCCTCGCCATCCCCGGAGGCCACCGCTGTGGCTGTGCTTCACACTACACGCTGGACCCCAGCAGCCGCAACTGCAGCC
Seq A exon
GTAAGTGCCTTGATTCCCACTTGCTGCACGCACCAGGCCTTAGCCCCTGAGCCACCACTGTGGCTGAGATTCTTCCAGCCACCAGAATGGCTCCTGAGTCTGTGTTCTTGATGCTATAAGCCTGCACAACCCCGTGTTGATTGACCCAGTAGGTGTTACTTTCATGGCGGGGAAAGTGAAATTCAGAAGGCCAGGGAATGACTTCCCAGTAGCCCTCTGAGGACAGGTGTGTCTTGTCAGCAGGCGCCATGGTGATATGATATTGGCAGCGAGCCAGATACAGACTGGCCTCCAGCTAGAGCTGGACAGTCCCTGAGGCCTCTGCCATCGGGTCTTGTGCATCACCCATACGTAGCACGGCTCTGCTGCCTTTCCCTGTTGAGCCGGTGAGGACCCTGAGATTTGAAAGGGTGGGAAATGTACCTGACCCTGAGCTGGTCTGCAGTGGCCACAGCCAGAGTCACCTCCATTTGTCTGTCTGTGCACTACATGTGTGTAGTGCCCAGAGAAGCAAGAAGCCTTGGATGCCCTGGAACTGGAGCTACAGACAGTTGGTAGATACCACATAGGTGCTGGGAATAGAACCCCAGGTCCTGTGGAAGAGCAGTCAGTGTTCTTAACTCCTGAGCCACCTCTCCATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTAATTATTTTTGAGATAGAGTCTTACTATGTAGCTGGCCTGCAACTTGCTATATAGACAAGACTGCCCTCAAACTCGTGGAGATTCACCTGCCCCCTCCTTCTCCCCCTCCCCCCTCCTGAGACAAGGTTTCTCTATGTAGCCCGGCTGTCCTAGAACTCACTTTGTAGACCAGGCTGCCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTACTGGGATTAAAGGTGTGCGCCACCATGCCCTGCTTGTCCCCGCTTTTCTGAGTGCTGTGTGTCCACCATGCTCAGCTGGGCTGTTCTTGAAGCAGGTAGGGGAGCAGAAGCAAGAATGCTTAACTTCCTAGTGTCTTGGAACAGTGGCTTGGATTTCAAACCACCCACTGTAACACACTGATCCTGGAGGCTGCCTGGTACACATCTGAGTATCATAGTTCCTGAATCTGGGCAGCTGGCCTTGGGCCTCAGGACCTGGGCTCCCTGCCAGGAAGGAGAGCTTGCTTTCTAATCTCTCCAAAAGCAGTTTTCTCCTGTTCTGCTCTCTGTGGGTACCTGTATTCACATCCACACTCCCACACTCCCCACCTCTTGCACACAACTTAAAAAATAATAAAAGCAAATCTTAAAATAATCCCGGGACTGGGGTAGAGTGCTGACCTAGCATGGGCAAAGCAAATGTAGCATGGCATAAACAGGGTGTGGTGGTGCATGCCTGTGGCCCCAGTACTTGAGAGATAGAGGCTCTTAGTGTTTGAGGAGGATGAAGAGTGAAGAGAGTTTGAGACCATCCTTGACGTCCTGGACAAGTTCAATGCCACTCTAGGCTAGAAGATACCCTAGATTAAAAAATAAAATAAAATAAAATAAAGAAAAGGGGGAAAAGGTGTGAATTTATTCAGAACAATCATACAGACTTCTGTGATGATAGCAGAAATAGCCCAGAATCCGTGCCAGCTGACAGTTCTGTGTCCGCTCTTCTCTAAGAGGCCCAGTGTCTGTAACCACTCTGGGTGCCGTATCCCTGGCCCCAGCCTCTCATCTCCCTCTTACTGATGCTTTCTGCTCAGTCTGTTTGTCCAGCTTTTCAGCTTGCTGATGTTCTCTGCTAGGTCTGTCTGTCCAACAGCCTTAGCTGGCTATGCTTGCCACTCAGTCTGTTTATCCAGTCCCTTAGCTTTCACTTGCTAATGCTCTCTGCTCAGTCTGTCTGTCCTGCTCCAGCGCCCTCAGCTTGCTGATGCTCGGCGCTCGGTCTGTTTGTCCCACTCCAG
Seq C2 exon
CGCCCTCCACCTTCTTGCTGTTCAGCCAGAAATTTGCCATCAGCCGGATGATCCCCGATGACCAGCTCAGCCCGGACCTTGTCCTACCCCTTCATGGGCTGAGGAACGTCAAAGCCATCAACTATGACCCGCTGGACAAGTTCATCTACTGGGTGGACGGGCGCCAGAACATCAAGAGGGCCAAGGACGACGGTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024913-Lrp5:NM_008513:12
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=0.104
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(45.9=15.6),PF0005812=Ldl_recept_b=WD(100=37.6),PF146701=FXa_inhibition=WD(100=33.0)
A:
NA
C2:
NO
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:
ACCTGCATAGCATTGAACGGG
R:
GACGTTCCTCAGCCCATGAAG
Band lengths:
347-2306
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: