MmuINT0092426 @ mm10
Intron Retention
Gene
ENSMUSG00000040249 | Lrp1
Description
low density lipoprotein receptor-related protein 1 [Source:MGI Symbol;Acc:MGI:96828]
Coordinates
chr10:127555991-127556332:-
Coord C1 exon
chr10:127556210-127556332
Coord A exon
chr10:127556132-127556209
Coord C2 exon
chr10:127555991-127556131
Length
78 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CATCCCCTCCCCCACCACAGAGT
3' ss Score
8.47
Exon sequences
Seq C1 exon
TGTACAACAGCACCTGTGATGACCGTGAGTTCATGTGCCAGAACCGCTTGTGTATTCCCAAGCATTTCGTGTGCGACCATGACCGTGACTGTGCTGATGGCTCTGATGAATCCCCTGAGTGTG
Seq A exon
GTGAGTCCCGTGACTGGAGGAGTAGCCCTGCCTAGCCGTGCTGGAGGTCCAGCCTCATCATCCCCTCCCCCACCACAG
Seq C2 exon
AGTACCCAACCTGCGGCCCCAATGAATTCCGCTGTGCCAATGGGCGTTGTCTGAGCTCCCGTCAGTGGGAATGTGATGGGGAGAATGACTGTCACGACCACAGCGATGAGGCTCCCAAGAACCCACACTGCACCAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040249:ENSMUST00000049149:53
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:
PF0005713=Ldl_recept_a=WD(100=90.5)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=87.5)
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:
TGAGTTCATGTGCCAGAACCG
R:
CCATCACATTCCCACTGACGG
Band lengths:
177-255
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