MmuINT0092721 @ mm9
Intron Retention
Gene
ENSMUSG00000024913 | Lrp5
Description
low density lipoprotein receptor-related protein 5 [Source:MGI Symbol;Acc:MGI:1278315]
Coordinates
chr19:3628273-3630470:-
Coord C1 exon
chr19:3630074-3630470
Coord A exon
chr19:3628445-3630073
Coord C2 exon
chr19:3628273-3628444
Length
1629 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
ACCGTTTGCTTTTTCTCTAGCCT
3' ss Score
8.19
Exon sequences
Seq C1 exon
GGGCTGAGGAAGTGCTGCTGCTGGCTCGGAGGACAGACCTGAGGAGGATCTCTCTGGACACCCCTGACTTCACAGACATAGTGCTGCAGGTGGGCGACATCCGGCATGCCATTGCCATTGACTACGATCCCCTGGAGGGCTACGTGTACTGGACCGACGATGAGGTGCGGGCTATCCGCAGGGCGTACCTAGATGGCTCAGGTGCGCAGACACTTGTGAACACTGAGATCAATGACCCCGATGGCATTGCTGTGGACTGGGTCGCCCGGAACCTCTACTGGACAGATACAGGCACTGACAGAATTGAGGTGACTCGCCTCAACGGCACCTCCCGAAAGATCCTGGTATCTGAGGACCTGGACGAACCGCGAGCCATTGTGTTGCACCCTGTGATGGG
Seq A exon
GTAAGGCTGAGACGACAGGTGGGCTCTGGGATAGTCCTTGCTGCCTATCCTCTGAGATATGCAGAGTCAGGACTGGTCTAAAATAAGCATTTCTCAAAGGGCTTGCAGTGCTGCGGCTGCAGTTGGTCCTTAGACCGGACTTAGAGGAGCTCAGGGCCAGGCCATGGGGCAATGGTGAGAAAGCCCGAGGGCTGGGCAAGCAAGCATAAGGACCCATGATGACTCTTAGGATCCACAGTAAAAAATGGACAAACAAAAACCACCGAAGAACTGGAAGGGGCTAGAGAGGTCACTCAGCAGTTAAGTGCTTGCTGTGCAGATAGGAGGATAAGCTCGGATCCCTGGAAACCCATATGAATGCCTAGTGGGCATGGCTAAACTAAGGTGGAGCCTCTGACCCCAGCATCTGTGCCCAGTGGTGAGCAGGGCTCCTGAGCTAGAACTTTAACTGACCAGACCCTGATGGGGAGGGTGCCACAGAACTCTGGGCGTGATGCTGGGTGGGGTCGGGAAGAGTCTGCGCTTAGTGCAGGGTGTGAACCTGTGTGAGGGGCAGGGCCGGTCAGGAGTGGTGGCTACAGTCTTCTGAACACTGTAAGCGCAAGTGTGTTCCCTGTTACGGTGACAAGCTGGAGTACAGCAGGAGCTGCCGATGCCTACAAGTGCTGGTGCCAGTGCTGTATCCTGCCTACCTGTGGGCTCTGCCCCAGGCTTTTGGTGCAGCCCATTGTGAGGCCTTGTAAGCCAGAGAGTTTGAAGGGGTTATGTGTAGAGGTCCAGAAGTGGGGGCAGCAGTTAGTGTGGAGTGTGGGGGAAGGCTCTGTGCTGCTCTTTAGTGACCTTGGGCCCAATAGTAGGCAGAAGAATTTGCTCCGTGGTAATGGCCAGAGTGCAGGGTTGTCCCCAAAGAAGATGGTGACAAGGAGCACTGGGGTCATTTGAAGCTGTGGGTGAGGAAGCAGGGATTCGGTGGTCAGCTCAGGTCGGGAAGCTTAAGGATCTACTCCCAGCTACACCAGAACTCAGTGAGGTCGCAGCCCCATGGCCACAGAGGTCTCGTGTGTGAACTGAGGTAGGAGCAGAGATCAGGCCCTTCCTAGCCTGTGACTTCTGAGCCTGAGGGTCCAGGGTAATGGGATGGCAAGTGACGTGTGTCTGATCCCAGGTCCCAGGAAGGAAGAGTGTTTCCTACGCAGGGGCCAGGAGGCAGGTCCGAGGTAGCAGGAGGCGAGGCTCTACCCTGAGTCCGGAGTGGCCTGGGTTTTCTTGCATTGAAACTTCTGCCCTCTGCCTCCAAATTTTTCTGGGGTCACCATCCTGAGCATATGGGAGCTTTGCTTCTGTTTCTAGAAGGCTCCCTGCCGCCCTCCTCCCGCTGTTCTGGACTCTAGCAAACAGGTCAGGGACAAGGGTGCCCCAGATGATCTACAGGGTCACTTTCAGAATTTTCCTACGGGGTGGGAGCTGAGCCTGCCGCCCCCTGGCAGCCCTGTGTTGTCCTGTGCTGTGGGGGTGCTCTGGTGTTCCTATTGAGCTGTAGGCTAACAGGCTAGGGTAGGTGTGTCCCTCAGAGTTGGGGCCTAGCAAGGGCAGAACAGACACTATCATGACCGTTTGCTTTTTCTCTAG
Seq C2 exon
CCTCATGTACTGGACAGACTGGGGGGAGAACCCCAAAATCGAATGCGCCAACCTAGATGGGAGAGATCGGCATGTCCTGGTGAACACCTCCCTTGGGTGGCCCAACGGACTGGCCCTGGACCTGCAGGAGGGCAAGCTGTACTGGGGGGATGCCAAAACTGATAAAATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024913-Lrp5:NM_008513:6
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:
PF0005812=Ldl_recept_b=WD(100=30.8),PF0005812=Ldl_recept_b=WD(100=30.8),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=72.4),PF0005812=Ldl_recept_b=PU(33.3=22.4)
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:
TGCCATTGACTACGATCCCCT
R:
TCTCTCCCATCTAGGTTGGCG
Band lengths:
351-1980
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: