MmuINT0092710 @ mm10
Intron Retention
Gene
ENSMUSG00000024913 | Lrp5
Description
low density lipoprotein receptor-related protein 5 [Source:MGI Symbol;Acc:MGI:1278315]
Coordinates
chr19:3600673-3602444:-
Coord C1 exon
chr19:3602235-3602444
Coord A exon
chr19:3600799-3602234
Coord C2 exon
chr19:3600673-3600798
Length
1436 bp
Sequences
Splice sites
5' ss Seq
TCTGTACGT
5' ss Score
4.47
3' ss Seq
ATCTTGCTGTGTCCCTGCAGCAG
3' ss Score
10.1
Exon sequences
Seq C1 exon
GGGCCAACCGCCTGACCCTGGAAGATGCCAACATCGTACAGCCAGTAGGTCTGACAGTGCTGGGCAGGCACCTCTACTGGATCGACCGCCAGCAGCAGATGATCGAGCGCGTGGAGAAGACCACTGGGGACAAGCGGACTAGGGTTCAGGGCCGTGTCACCCACCTGACAGGCATCCATGCCGTGGAGGAAGTCAGCCTGGAGGAGTTCT
Seq A exon
GTACGTGAGAGGGGACAGTGTTTGTGGTGGGGTCTCCTGGGGGAAGGTGAATCAGCCCTACTGGCATCAGATGGGCTGCTGGTGCAAGAGCAGTGTGCCTGAGGAGCTCATGGGCTCAGCACCGAAGGCCAGTGCATGTCCAGATGTCTGCCTCTTCGATCAGTTTGTTTGCTGATATAGAGAAGTACCCAAACATGCTTTTTAAAAAAGTTCTGTCTTCTACCTACCCACCTACCCACACTTCTACCAATATCATTCTGTCCATCCGTCCATCCATCCATCTCTGTCACTTGTCTATATTTATCATCTATTTGTCAGTTTGCCTTTGAGACATAGTTTCTAGGTAGCCCTGGAATTGTTTTTTTTTTTTTTTTTTTTTTTGGTTTTTCGAGACAGGGTTTCTTTGTGTAGCGCTGGCTGTCCTGGAATTTACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCACCTGCCTCTGCCTCCTGAGGGCTGGGATTAAAGGCGTGCGCCACCACTGCCCGGCTAGCCTGGAATTCTTGACAGTTCTCATGAGTGCTGGAATTCTCTGAGCTGGGGGAGGGGAGGCAGTACACATCATGGCAGTGATTGTATGATGAAGAAGGCTACATGCTTCACTGGCAGAAACCCAAGCACAAAGGAGAGAGGTGGAATCCCACTGTCTCCTGCAAAGACACCTCCCCACCCCCACCCCCATGACCCAAAAGCTCTCCACTAGGCTCCTGCTGTTTTGTTTTGTTTTGTTTTGTTTTTGCAGTCCTCAGAGTGAATTTAGGTCTCTGCTTGCTGGATAAGTACTCTACCCTTGAGCTACACCTCCAGTTAGGTCCTACTCCTTAAAGTTCTGCTGCTTCTCAGTAGTGCCCCAGTGGCAAGTACCTCTCCTGGGAAGTGCAAGTCTCTGAGTTTCAATTACCAAAAGAAGAAAGGACCTTGCATCCGCTCCCCTAGGTGCAAAGCCATTGGGGAGCATGTGTCCAAATGGACAGCCTTTCTTGTCAGCTGCTCCGATGTCCTGGGGGTATACTGTGCTTTTCCAGGGTTCAGACCTGTGGCTGCCCCTCCATGCTGCCACACCCTTACAGCAGTCTGACTCCTCCCTAGCCCCACAGGGACCATCAGCTGTCCAGAGCTTCCCTCCCAGCTAGGCATGATGTCTCTGAGTACCTTCCCTCTTCATGCTGGAATGGTGGTTGGGTTGATCTTGTGCCGGTGGCACAGCTGCTGTACAGGTACAGCGCTGCTGCCAGACTCGGTCTTTACATCAGATTCCATGTCAGTATTGATTGACTGGGCTGGGAGCTGGGACCAAATGAGATGGTCTTCTATAGGAATCTGGCCTTTGCCTTCTACACACGTTGAGCTCTGAGGAGGAAGGTAGAGGCTGACCCAACTCCATCTTGCTGTGTCCCTGCAG
Seq C2 exon
CAGCCCATCCTTGTGCCCGAGACAATGGCGGCTGCTCCCACATCTGTATCGCCAAGGGTGATGGAACACCGCGCTGCTCGTGCCCTGTCCACCTGGTGCTCCTGCAGAACCTGCTGACTTGTGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024913:ENSMUST00000025856:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.169 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(48.7=26.8)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGACCCTGGAAGATGCCAA
R:
CACCACAAGTCAGCAGGTTCT
Band lengths:
326-1762
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types