MmuINT1022379 @ mm10
Intron Retention
Gene
ENSMUSG00000049252 | Lrp1b
Description
low density lipoprotein-related protein 1B (deleted in tumors) [Source:MGI Symbol;Acc:MGI:2151136]
Coordinates
chr2:40595248-40598511:-
Coord C1 exon
chr2:40598413-40598511
Coord A exon
chr2:40597075-40598412
Coord C2 exon
chr2:40595248-40597074
Length
1338 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGA
5' ss Score
4.74
3' ss Seq
TTATTCTCTTTACCCTTCAGCCA
3' ss Score
8.29
Exon sequences
Seq C1 exon
TCCAGGTACATAGGGGGAGGGTCCAGTGCTTTCAAGCTCCCACATACAGCACCGCCCATCTACCTAAACTCTGATTTGAAAGGACCACTAACTTCTGGG
Seq A exon
GTGAGAGAAACAGCCTATCTTTTCCTTTCCATCCCATTTCATACCCTCACCATTCACAGAGCCACTCTTGACTTGGACAGAGCTTGCCCTTATCATGGTTTAAATTAACATGAGTTTGCAAATTAGCATTAAAGTCTCAGACTTTTGCACACTTTACGTATAAGAATGTTTCTAAAGCACATTACCAGTTTAGACCAGCTATTATGTTGATAGTATTCCCTCTATGGAATTTGGAAGAATTTTAAATTGTGGCCAGCTAGATTTATAAAAATAAATGTAAAGTGAATGAATTTAAATTTATTTATTTTAATTATAGATAGGTATATTTAGATTGTATATATATATTATGAAATGCTAAATTAAAATGTGCATAAAATTTCATATTTTAGACAAATTAGAGATGGTATAATGAAATCTTAGTTATTTTTAAGATTTAGTTACTGTGTTTAGAAAACAAGTTTTCTGTCCAGAGTCACAAATCTCATTTTAGGTAGAACAAAAGATCATGGATATACAGGTTCCTCAGACCTCTTGCTGCAGACCATCAAGTCCTTTTCATTCTCATTGTTTGTTTTAGAGTGTGCATGTTATAAAGACTATATGTTTCCTTGCTGTAACAAAGGTTAAGATACTGCATGAAAAAGAAAAACACAAACTAAACTGAAACTCGTAACAAAAATAAAACTGAAGTGGTACTTTTTTGTGTAAAGTTTCAGTTTCTTTAATAATGAATATTGAATATTGTTTTCAACTGAAAGAGCTTGCTTGTTAGCCTTGATTATGGTTCAAAATCAACCATGCCTCTACAACTTCACATCTTTCTCTGAATTCAAGATTATTGGGAAGAATCCAGAGATATTTCCAAAGCAAGTACATGTAGGTTGTTTGAAGCAAAAAATACTGTTTTTACTTTAAAGATATATACCTAATATATTCTGTTGTTTTGATTTATCTTCATTTACTTATGTTTAATTCACATTGAAAAATTAGAAGAGTAAACCAATTAGGTAACTTTTGCATTCATCTGTGGACTTGCACCAGTAGTCAGAGGTGGGGACAATGTGTGAAAGGCCAGATATCCTTGAAACAATTATGTTTACCATTTTATATTAAAGCTATGGTATAAGTTTCACAGTTATACTGGCTTTTACTTTTGTTTCAAAGCTTCTGTTTTGTCTCAAGCTACCTTAAAATGTAGTTATGTTTCTACATTAAAGTGGACTAAAATCTATGAACATAGTAATTAAATGACATGTCATCATTAAGAACAATATTCTACAAATTAATTAATTTGGTCAAAATGATAGTAAAACTCAATTTATTCTCTTTACCCTTCAG
Seq C2 exon
CCAACAAATTACTCCAACCCAGTATATGCAAAATTATATATGGATGGACAGAACTGTCGAAACTCCTTAGCAAGTGTGGATGAACGGAAAGAACTTCTTCCAAAGAAAATTGAAATTGGCATCAGAGAAACAGTAGCATAATGAAGGACACTTTTCTATGCTGTATAAATGTATAAAATATAAGGATTACTTTTATATGTTCCAACAGTATTATACTTATTTTAGCATCAACATCATCTCTTTATCTTTTTCCTCGTTAATTGTTTTCTGAGTTTGGGGGGTTTTATTTTTTGCTAATGAATATTGATTCACCATTTTTAAGGTATTTTTATGAAAAATAACTGCACTACACTAAAACTTACAATGATGCTGCTGATATGACACACCTTTAAATTTGTTAAAACCTAAAAACAACAAAACCATATTCCTTTGTAGAGTTAATATGAGCAATCTATTTTATAAGAATTTTTTGTTCTCCATAATCAGCAAAGTACTCTACACTTTAGCATTCTATTCTCTGAAAATTTTAATACAATGTCACTGTAGTTTCTGGGAAATTGAAAGGACAAACTCTCTTCTTCATGCCCATGAACATGGATTCAGACTTGGCTGAGAATACATAGCTCATCCGAGGTCAGCATCTCCTGCTTTGCAATTATTCTTTGTGGACAGAGAGGAATAATTAGAATTTTGGAGAAAAAAAAACTTTTAAAAGGACATAATTTGCATGAATCAAAATGACTTATTTTCCAAAAGTTTAATAGACTCTTTGATATACAAAATAAATGACCCCTGTAACAATAGTGGTATTTAGGTTGATAGAACATAGCAAGCATATAACTAGAACAGGACTAATAGAACTTGCTGTGTAATAGGACCTTTTGCTTCTCCTCCATCCTAAGGCACACAGCCAGCCGAGAGCATAGTGGGTTATGAGACCTCATGTCTTATGTATTTATTTCCAAGTATGTTCATGTTGTGGATAATTATTACCTCTTAATCATGCTGAGCACTAGAAAACCACATGCAACCATACAAAATGATACCAAAATTTCAGGTTTGTGAAGACACTCTCTTTGTCAGGTCAAAGAGAATTTTGTTTGTATAAAGTAATTGGTAAGGATTTTTGACATGCCATATGACTAATTATTTGTGCTCTCAATTCAACTACGATTCAAAAAAATCTTTCAAGCTAAAACAATTACATGCCATGATGCCTGGTGGAGAGTCTATTCTGTGCCACTAGCATTGGTAATTTGTTTTCTCTTTGCTTATACAAAACATACAGACCCATTCACTTTGTTCACTTGTTTTCAAATTTTGATTGTAACAAATATGGTTTATTTAAGTTGAATAAAAAGATAGCATTTTTATACAAATATCTTTAAAGGCACAAAAGTTTTATTCATAAGCAGTGGGGGTTTTTGTCCCTCTGATAGACATGACTGACTTTTAGCTGTCATAATGTATTAATCTAACAGATGAAATATGTTTGTGGTTGCTCTTTATCCCTTTGTACAAGCATTAAAAACTGCTGTTTTATAAGGAAACTTTTTGTTGTACTATGTGCATGCATACTACCTATTTCTAAACTTTGCCATACTGAGGCCTTTATAGAATATTGGTTTATGTAATACTTGTGTGAGTTGCTTGAACAATGTTATGCATACCATAAACTTTTTCAGGTTCTTGTTTAAGTACATTTTTTAAATTGAACAGTATTTTTCATTTTGGTTATAATAGTCATTTTGCCTATGTTTCTACAATGAAGTGTTAAATACTTTATAAAAATTGTTGACTGACTTATTTAAATGAAATTCTACATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049252:ENSMUST00000052550:90
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.039
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGCTCCCACATACAGCACC
R:
CCCCCAAACTCAGAAAACAATT
Band lengths:
347-1685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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