MmuINT0092541 @ mm9
Intron Retention
Gene
ENSMUSG00000049252 | Lrp1b
Description
low density lipoprotein-related protein 1B (deleted in tumors) [Source:MGI Symbol;Acc:MGI:2151136]
Coordinates
chr2:40677106-40678215:-
Coord C1 exon
chr2:40678027-40678215
Coord A exon
chr2:40677255-40678026
Coord C2 exon
chr2:40677106-40677254
Length
772 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
TGTGTTTTTCTTGTCCTTAGTCT
3' ss Score
9.97
Exon sequences
Seq C1 exon
TCCCTAATCAAGATATTCCAGGGGTGATTGCACTCACTTTGTTTGAAGACTACATCTACTGGACTGATGGGAAAACCAAGTCACTCAGCCGTGTCCATAAAACCTCGGGAGCAGACAGACTTTCACTGATTAACTCATGGCATGCCATCACAGATATCCAGGTGTATCATTCTTATAGACAACCCGATG
Seq A exon
GTAATTATTCTCTCCATGGTTTTCATAATGCATTAACATCTTCCAGCAACATTTCTTTTTTTTTTTTTATTTCAAGATTAAGTCTAATTTCATTCTTGATAAGAATGATCTGATTCCATGGTTTAGCTTTATCTTACACGATAAAGCCAGTTCATATCAAATATTTGTATTGCAGCAGGTGATTAGATGCTCAACAATAGCATAAAGATTTATTGATTTGTTCAAATCATACTAAACTGAGTTGAAAACAATGAAAGAATACATCATTAGAATAATTCAATACTGTAGAGCTCTAGGATGCTTATTTTCCAGAACTCTGGCTACAAAGAATTCTATTTCAATAGTTTGGGATACTAAAATTGGAAATATTTAATGTGCCTCATAGGATACTACAAGACCATGTGGAGTAAATGTCTGACTGCTTTCCTGAACTAAAAGACAAAACTTCATGTTTTTTGTTGTAGTTCATTGTTTCATTGTTTTATTTTACATTTATATTTCTGAACATATGTGTTATTTTATCCCAAATGCTTCTAGTCTTTGTTTACTTTATTGATGAGTGATTATTTTTAACTAACATGATTGTTTTTTAGAAGCCATTTAAAATGAATGAAATCAGAGATTGAATAGCATTCATAATATATACCCATAACTTTAATAGCTGCAAATGACAAAGCTTTATTCAACTATAAATTATAAACTTGAACATTCAACATCATATTACATTACTGGTCTTGATGATTGTGTTTTGCTGTGTTTTTCTTGTCCTTAG
Seq C2 exon
TCTCCAAACATCTTTGCACAGTAAATAATGGAGGATGCAGCCATTTGTGCCTTTTAGGCCCTGGGAAGACCCACACCTGTGCATGTCCTACCAACTTCTACCTTGCAGCTGATAATAGAACTTGCTTATCCAACTGCACAGCCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049252-Lrp1b:NM_053011:61
Average complexity
IR-S
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:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=74.0),PF0005713=Ldl_recept_a=PU(15.8=12.0)
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:
TCCCTAATCAAGATATTCCAGGGGT
R:
GACTGGCTGTGCAGTTGGATA
Band lengths:
336-1108
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: