MmuINT0092518 @ mm9
Intron Retention
Gene
ENSMUSG00000049252 | Lrp1b
Description
low density lipoprotein-related protein 1B (deleted in tumors) [Source:MGI Symbol;Acc:MGI:2151136]
Coordinates
chr2:40966274-40967903:-
Coord C1 exon
chr2:40967779-40967903
Coord A exon
chr2:40966646-40967778
Coord C2 exon
chr2:40966274-40966645
Length
1133 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
TGTGGGTATATCTTTCTCAGGGA
3' ss Score
7.52
Exon sequences
Seq C1 exon
AGCACACGCCAATGGATCAGTCAGAAGAGGCCACAAGAATGATGCCACAGAGACAGTAACCATGAGAACAGGACTTGGAGTTAACCTAAAGGAGATCAAAATTTTTAACCGAGTAAGAGAGAAAG
Seq A exon
GTCAGCATACTTAATGAAATATACAATTAATAAATTTTGTATCATTTCTTGATTTGTTTTTAAAATTTAAGTAATAAAGTGGATTATTAATTAAGTTCAAAACCTCAAAATTCCCTATTTGGTGATTCTTTAATAACCAGAGAGAATGCTGATTATTAATAACCAAGGAAATAAACATATAAGAGTTTATATACATGTATATTACTTGTTTTGTGAATATGTATTGTCATATGATATGGGACAAGTCTTGAGAATGAGTTTGTACTAGTAAATATATTTTTAAATTCTGGATTGACATATTTGACAAAAAGTACAAAGCACAACTGGGGTATTAGAGAATCAATTGAATTTTTTGTTTTGGGTTACTCTTTTAGAAGAAAAGTTGATATGGCTCTGGAAATGGTTGTCTTCAATGTGAATTTCTGAATCATTGCTTCTTTGATGGTAGTTTTGCCTATTTTTAAATTCTTTTTACTCTGTCTTTTATACAGAAGACATCTTACACAATAATTTTGAAGATGGTAATAATGAATTCTAGCATAGACTCAGCCTTGTTTCAAAATTAAAGTTATTTGTAACCTATATATGAGAGGTGAGGCACAACAAAGCCACCCACCCCAACTTTCTCTATGACTCACAAACATGACTGAAAGCAACACGTGATTTCTCAGTGACTTTGGCTTACGTTTTGAATGACTGTTATATGTGCCGAAGACATTGCAATATAAAACCTATCATTTTAAAGCAATGCATTCATCTAATTTTTTAAGGACAATTTTGCTAGTTTCATTATGGTGCTAAGGACTAAACTTAGGACTTGGTACTTGCTAGGCAAAGGCATCACCCTAAGCTAAATTACTAAACTTAGTAAGTTAAATCTGAATGCTTTTGTTTGACTGCAATATATAGTCATATATATTACTTCAAACTGAAATTCAAGAAGCTAAAACCTGTGAATTAAAAATTCATTAGTGTTTTATACTTAATTTTTATAGGCCAATCTTTAAAAATAAAATGATACTTAATGTTAAGTATTACAACTTAATATTCAGTTCTAGCATTTCTATAGGAGTGAGATAAACTTTTTCAAACATCAAAAAGTGATTGTACATTTGTGGGTATATCTTTCTCAG
Seq C2 exon
GGACCAATGTCTGTGCCAAAGAAAATGGTGGCTGTCAGCAACTATGTCTTTATCGAGGAAATTCCCGAAGAACCTGTGCCTGTGCCCATGGATATTTGGCTGGGGATGGAGTTACTTGTCTAAGGCATGAAGGTTATTTGCTATATTCAGGAAGAACAATATTAAAAAGCATACATCTTTCTGATGAAACCAATTTAAATTCCCCAGTACGGCCCTACGAGAACCCAAATTATTTCAAGAATATTATAGCCCTGGCTTTTGACTATAATCAAAGAAGAGAAGGTACCAATCGGATCTTTTACAGTGATGCACACTTTGGAAATATACAGCTTATTAAAGATAACTGGGAAGACAGACAAGTAATTGTGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049252-Lrp1b:NM_053011:40
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.209 A=NA C2=0.024
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=28.8)
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:
CACACGCCAATGGATCAGTCA
R:
AATTTGGGTTCTCGTAGGGCC
Band lengths:
354-1487
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: