MmuINT0092745 @ mm10
Intron Retention
Gene
ENSMUSG00000030201 | Lrp6
Description
low density lipoprotein receptor-related protein 6 [Source:MGI Symbol;Acc:MGI:1298218]
Coordinates
chr6:134485644-134486671:-
Coord C1 exon
chr6:134486455-134486671
Coord A exon
chr6:134485934-134486454
Coord C2 exon
chr6:134485644-134485933
Length
521 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TGTAACCTATTTTCTTTTAGGTT
3' ss Score
11.62
Exon sequences
Seq C1 exon
GTTATGAATACCGATGGCACCGGGAGGCGAGTGCTGGTGGAAGACAAGATCCCTCACATATTTGGGTTTACCTTGCTGGGTGACTATGTTTACTGGACTGACTGGCAGAGGCGGAGCATCGAGAGAGTACACAAACGGAGCGCAGAGAGGGAGGTCATCATAGATCAGCTGCCAGACCTCATGGGACTGAAGGCCACAAGTGTTCACAGAATCATTG
Seq A exon
GTGAGTCATCCCAGAGGCTCTGAGAAGTGGATCTGGACCTAAAAAAGATAAGAGAAGTGGCAGAGAGTAAAGGTGAATCGTTGATGTTTGAATCAATTTAAAATCTTTACTATACCTGCCTCTGACACCGCAGTGTGTGTGATCTGTTAGGTTAGATCCATAGGCAGCCACTTCATCACAGGAGCTCAATGTCTCGTGTGTGTGTGTGTGTGTAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAAATAGATATAAAATGCCCTTAGTTTACTGCTTACTGTAGGTATAAAACATTTGTTCATACTTTTTCTCATGGATAATCCCAGTACTGCTTGCTTGTAAAAGTAGAGTTGGAACTAGGTCAGGACCGACAGAAGAACCATGAAACAAATATGTCCTGCTTTAAAAGTGAGTATGTGTTGATAATGCCAATGTTTGTGTTTTTCTGTACCTGTTGTAACCTATTTTCTTTTAG
Seq C2 exon
GTTCTAACCCCTGTGCTGAGGACAATGGAGGATGTAGCCATCTTTGCCTGTACAGGCCTCAGGGGCTTCGATGCGCCTGTCCCATTGGCTTTGAGCTCATCAGTGACATGAAGACATGCATTGTCCCCGAGGCTTTCCTTCTGTTCTCGAGGAGAGCGGATATCAGACGCATATCTTTGGAAACAAACAACAACAATGTGGCCATTCCTCTCACTGGTGTCAAAGAAGCCTCTGCTTTGGATTTTGATGTCACAGACAACAGGATTTACTGGACTGATATATCACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030201:ENSMUST00000032322:8
Average complexity
IR
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=PD(61.5=32.9)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=37.1),PF0005812=Ldl_recept_b=PU(24.4=10.3)
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:
CGAGTGCTGGTGGAAGACAAG
R:
ATCCGCTCTCCTCGAGAACAG
Band lengths:
351-872
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