MmuINT0092727 @ mm10
Intron Retention
Gene
ENSMUSG00000030201 | Lrp6
Description
low density lipoprotein receptor-related protein 6 [Source:MGI Symbol;Acc:MGI:1298218]
Coordinates
chr6:134479509-134480560:-
Coord C1 exon
chr6:134480376-134480560
Coord A exon
chr6:134479836-134480375
Coord C2 exon
chr6:134479509-134479835
Length
540 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGC
5' ss Score
9.86
3' ss Seq
TACTGACTTTCCCAAAATAGGAC
3' ss Score
7.52
Exon sequences
Seq C1 exon
GTTTATGTATTGGACTGAGTGGGGAGGCAAGCCTAAGATTGACAGGGCTGCTATGGATGGAAGTGAACGCACTACATTAGTTCCAAATGTAGGCCGAGCAAATGGTCTCACCATCGACTATGCTAAAAGGCGGCTTTACTGGACAGACCTGGACACTAACCTAATAGAATCCTCAGATATGCTCG
Seq A exon
GTAAGCCTCACTGTTTCTTGCTTAGGTGTTTATGGAAACTCACTGGCTGCCCTCGTTTGGATGCTCTGGCTGACACTTTGTATCAGCGGCTATTCTAGAATTGCATCTTTGTATCTTTGTTGTTGTTGTTAGTAGACCCCTGTTACTTGGATTTATTTATATATTATGCAAAGTTTTATTACTATTGGGTCTGTACTGATACTTGTGAAGGGATTCTGCTATGCACATGCATTCCCCGTCCTTTTGTGGAAGGGAGAATGAAGTACTGAACTCTGAGTCTCATGCACAGGAGAGAAAATCAAAGTCACAATAAACCATCGGAGTTTGAAGAGACTTAGCGACTTAGAGATGACTTTTAGGCAGGAGTCAGACTACGCATGGACTACTTTTAGAGGTCTCACCTGGTTTTAGGATTGTTTTTAAATGAAGTATTCTGTTTTAAATTTAATGTTTCATATGTTACTTTTTTTTTTACCCCAAAAGATAATTGTTCCTCACATACTGATGTCTCTCCCTTGTCTACTGACTTTCCCAAAATAG
Seq C2 exon
GACTCAACCGTGAAGTTATAGCAGATGACTTGCCTCATCCTTTTGGCTTAACTCAGTACCAAGATTACATCTACTGGACAGACTGGAGCCGACGCAGCATTGAACGTGCCAACAAAACCAGTGGCCAAAACCGCACCATCATCCAGGGCCATTTGGACTATGTGATGGACATCCTGGTCTTCCACTCTTCCCGGCAGGCAGGGTGGAATGAGTGTGCCTCCAGCAACGGGCACTGCTCCCACCTCTGCTTGGCTGTGCCCGTCGGAGGTTTTGTGTGTGGATGCCCTGCCCACTACTCCCTGAATGCTGACAACAGGACCTGCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030201:ENSMUST00000032322:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.063 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=65.1),PF0005812=Ldl_recept_b=PU(51.4=30.2)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(45.9=15.5),PF0005812=Ldl_recept_b=WD(100=37.3),PF146701=FXa_inhibition=WD(100=33.6)
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:
CGACTATGCTAAAAGGCGGCT
R:
TCCACACACAAAACCTCCGAC
Band lengths:
352-892
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