MmuINT0092737 @ mm9
Intron Retention
Gene
ENSMUSG00000030201 | Lrp6
Description
low density lipoprotein receptor-related protein 6 [Source:MGI Symbol;Acc:MGI:1298218]
Coordinates
chr6:134404715-134406303:-
Coord C1 exon
chr6:134406073-134406303
Coord A exon
chr6:134404852-134406072
Coord C2 exon
chr6:134404715-134404851
Length
1221 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TTCATTTTTCTTTCCTTCAGGAA
3' ss Score
12.37
Exon sequences
Seq C1 exon
ATCCAACTGAGGAGCCAGCACCACAAGCCACCAACACAGTTGGTTCTGTTATTGGAGTAATTGTCACCATTTTTGTGTCTGGAACCATATACTTTATCTGCCAGAGGATGCTGTGTCCTCGTATGAAGGGAGACGGGGAGACCATGACTAACGACTATGTGGTTCACAGCCCGGCGTCTGTGCCCCTTGGTTATGTTCCTCACCCAAGCTCTCTCTCTGGATCTCTTCCAG
Seq A exon
GTAAGTGGCAAGCGATTTATGAGAATCTGCTCTTGTCCAGTTTTAAGTTCTAGGATTACAAACTACTCTGGGTTTAAGGAATTGTGAGAACTTTTTTTTTTTTACAGTTTTATACTGCCTTTCTATGCAAAAGGACTTAAGTATGACTTTGTCAGCCAGCTCCATGCCTCTGACTGCACCAATGAAATTCAGTGCTTGGTGAATACCTACTCTGTATAATTTCATCGAAGGGGGACCCTGAGGCTATGAGTGTAGGAATAAAGGAGTGGGAAGACAGCTCAGTTTGCTGTCCACAAACAAGGATTTGGAAATAGCTGGTTGGCAAGGAGAGAATATAGTCCCCTGTGCCCTCTCCTGATCTAACATGCTGACAGTGGTGTGAGGTGTGAGGTGGGTTAGCCAGATGTTCCCGCCTGGCTATAATATTCTTGGGGAGTAAAGCTTTCCCTAGTGCTTAGTGCCTTTAGTGAAAAGAATCCTGGGTTTTTATGCATCTGGAGGAGATGCCTGGTCAGAGCTCTCTGAAAATAGGAATTTACTATGGTTGTGACTCTCAGAAGAGCCACACTATTTAAGCTGGTGAGTAATGATGCGTCTTTGTTGCCGTACCTACTTGCAGTGGGAATGGGACCCTACTTGGAACAAACAGAACTTGTATATTAGCATTAGGAGCTTTGAGTTCAGAGGTGTCTGAGTTCTGTAGGTAAAGTGGTGTTTTCTTTCCCAGCACTCGGGAGGCAGAGGCAGGTGGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCAAAAAAGAAGTGTCTTCTATGCATTGTGTCTGTCTTATAAAAACACTTGGCATTCTTTGGCGCTTATCTGCTGGCTTGACCTACTCTGGTTTACAGTCTTCACCCCCACAGTTCTTTCCTTAAGTCTTCCATGAGAGGTGCTTACTTTGAAGGGCTGTTTCCACGGACAGAGTCAGGTGGGAGCTGCTTGGCCTTACTTGAGGCCAGTTCTCAGTGAAGCCCATGGTTTGGACGTTCATTTCCCTTTTCCATGAACTCTTTACAGCTGTTAGGAGGAAAAGAGGGTGGATGTTGCTTTAGTTGATGTTCTTCTAACTAGAGTGTTGATTAGCTGTTTCGTGTATTTTTATAAATGTTACTCACCCTTCATTTTTCTTTCCTTCAG
Seq C2 exon
GAATGTCTCGAGGCAAATCAATGATCAGTTCCCTCAGTATCATGGGGGGAAGCAGTGGGCCCCCCTATGATCGAGCGCACGTCACGGGAGCCTCCTCAAGCAGTTCTTCCAGTACCAAAGGCACTTACTTCCCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030201-Lrp6:NM_008514:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.179 A=NA C2=0.457
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CACAAGCCACCAACACAGTTG
R:
TGCAGGGAAGTAAGTGCCTTTG
Band lengths:
347-1568
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: