MmuINT0092732 @ mm9
Intron Retention
Gene
ENSMUSG00000030201 | Lrp6
Description
low density lipoprotein receptor-related protein 6 [Source:MGI Symbol;Acc:MGI:1298218]
Coordinates
chr6:134412554-134414622:-
Coord C1 exon
chr6:134414413-134414622
Coord A exon
chr6:134412680-134414412
Coord C2 exon
chr6:134412554-134412679
Length
1733 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TGATAATCACTCTTTTCCAGGAC
3' ss Score
8.41
Exon sequences
Seq C1 exon
GTGCCAACAGGATCGTGCTAGAAGACTCTAATATATTACAGCCTGTGGGCCTGACCGTGTTTGAAAACTGGCTCTATTGGATTGATAAACAGCAGCAGATGATTGAAAAAATTGACATGACTGGTCGAGAAGGAAGAACCAAGGTCCAGGCTCGAATTGCTCAGCTGAGTGACATCCATGCAGTAAAGGAGCTGAACCTTCAGGAGTACA
Seq A exon
GTAAGTGAAGTGGACAGTGAGTGCCCAGGGCTGCTGTGCTGTAAGAAACAAGACATGGCTTCATGGTTTCAACCGTTTTCTTCGTTATTTGTTTTTATATTTAGAAAAACATTGTGTTGAAGTGTTAAATCGAGTGTGATTTGAGTTTTTCAAAATTATCATGAAGACAGGTAAAGAAGTATAGTCCTGCAATCTTAGCACTAGGGTGAAGGCAGGAAGATTGTGAGTTAGACATAGTCTCAGTAAAACCTAGCCCTGGGATGTAGCTCAGTGGTAAAGCACTGGCTTTGCATCCACAAGGCCTGGGTTTGATCTTTAGTCTAAGTAGATAAATGAGTAGTAGTGTATACTTGAACGACTGAGAACCACCTTTGTTGATACATACTCAAGTATAATAAGTAGTATCCATTTTGGGTAATCTACTCCTTTGTAGATAGTTGACCATCTCAATATCAACACAGATTGATGTAGCACCCATATTATGATAGAAAACAGATCATAAGTAACGGCTATATTGCATAATGATACTGATACTGTAATAGCAAAGATCAGATTGCTTGTAACACAAGCTAAATAGAAAACTCAGAGCAGTGACTTTGTAAGTACTGACATTGTTGAGTTGTAAAGCTGACATTGAAGAGTTGCTGAATGGCTTGTCTTTTTAGCTTCACCCAATAAGAGGAACTTAGGCCTTTGTAATACTTTATGCTACCTTCGGCAATTGAACAAGCAAGCAGTTTTGTCTTTCTCAGTTCCATGTAACCATAAAGTTCTGTCTTCTACTAACTTTAATTTTCTACAAATTCTTTATTAAAATATACCCTTTAAAATGAAATACTTTTATTCTTTAGGAAAGTAGAGTTCTAAGTTAAAATGTTTAGAAGAGAATTTTCAATTTTAGAAATAAGACTACGTAAGTGCCAACAGTCTCCCTGGCAACTTGTAATTCTATAAATCATGTTTTACTTATTTGGTGTTTTTGAAACCAGGTCTCATTGTGTGGCCCTAGCTGGCCTAGAACTTGCTGGGTAACCAGTTCTAGCTTTACTTATGGTCAGGCTTTTGCCTCTGCTTTCTAGTACTGGAATACAGGTGTGCCTCATCATGCCCTTATTTGTAATTAATATCTTAACTACATAGTTAACATATCATAGTTAAATTTTTTATTCATCATGTTGTTTGGGTTTGTTGTTGTTTGTATGATCCTGGGGATTGAACCCAGGGCATCCCTCATGGCAAGCACTCTTAAACCTACAGTAGTTTAGAGTGATATAACATTGCTAGGTCTAGAGCCGGGTGTGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTAAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAAAAAAAAAAAAAAACAAAAACAAAAAAAAAAAAAACATTGCTAGGTCTACATGCCTGTAGTCTGGGTGTTTCTGGAGGCTGAGATAGGAGGGTCGCTTGAACCTAAGAGTTTAAGACTCGCTTGGCCATAGTGGGCTCCCACCTCATTCACCTCCTTACTGGGCTCATGGATAGATAATGTGTTAGAGGTCATATAGGGACAGAGTGTGGAATTATACTATGTAGAGGTTAAAGTCAGAACATTTTTTTAAGATGTGTTATTGTTTGTGGTTCATAAATCAATTATGATAATCACTCTTTTCCAG
Seq C2 exon
GACAGCACCCTTGTGCCCAGGATAATGGTGGCTGTTCACATATCTGCCTTGTAAAAGGAGATGGTACGACAAGATGCTCCTGCCCCATGCACTTAGTTCTGCTTCAGGATGAGCTGTCCTGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030201-Lrp6:NM_008514:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(51.2=29.6),PF0005812=Ldl_recept_b=WD(100=52.1)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=86.0)
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:
GTGCCAACAGGATCGTGCTAG
R:
CTCCACAGGACAGCTCATCC
Band lengths:
336-2069
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: