MmuINT0092571 @ mm9
Intron Retention
Gene
ENSMUSG00000049252 | Lrp1b
Description
low density lipoprotein-related protein 1B (deleted in tumors) [Source:MGI Symbol;Acc:MGI:2151136]
Coordinates
chr2:40453933-40455918:-
Coord C1 exon
chr2:40455774-40455918
Coord A exon
chr2:40454032-40455773
Coord C2 exon
chr2:40453933-40454031
Length
1742 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
AATTTTCTGTTTATGTACAGTCC
3' ss Score
6.1
Exon sequences
Seq C1 exon
AACAAAGACAATTAGAAGGCAGCCTATCATCAATGGAGGAATAAATGTAGAAATCGGCAATCCATCATACAATATGTATGAAGTGGACCACGACCACAGTGATGGGGGTCTTTTAGAACCAAGTTTCATGATAGATCCAGTAAAG
Seq A exon
GTAATATTTCTTGAAATCATGAGTAGAGAATACTAACATTCCTGAGTCAAAACCACTACAGAATTCTGAAATTAATTATGCTTTTGTAATAACTAAACTTACAGTAAAAGACTTTAATATATATTGGGAAATACCAGTAAATAGTGTATTATATATTAAAAAATATTCACTTAGTTTACAAAGATGGAATTTTATTTAGGATAATAACAAGATATATGGGGTGATAGCATCACTAATGTTCAGCATGATGTTGAAGTAATGGGTACTTCATTTTTCATTATGAAAAGAGTTCATTGGTTCAACTTCAGTATAATTAGTTTGATCAAAATATTGTCTTGTTGAAAAGTTAACAAAGCTGAGTCCTGAAGTTTATTTTTTAACTAAATCCCAGTGAGGAAAAAAAAATCTGTTATGTAATATAATAAATTTATTTATTTGAAACATTCAACAGTCATATGTAGCTTTTTGTTAATTTTATACATTTTTTCAAGGTTTCTGTAACATATCATTACAGTCTGCTCAAATGAAGCAAATATTTACATAAATTAAGTATGCAAAGATTAATTTGTCTTAATTATCTGAGCCCACATTTGCTGAACTATTTTCTAGCTACTTTGTTATTAATGGCACTTGTCCAGACTGTACCTTATAGTATTATCAAAGTGACCAATAATATACTTAAATTCATTAGTCCAATTTCATTAGGACTAATCTTACTTATTAACTAGCAAATTCTTACATTGGAACTTTCCATAAAATAAGTAATGCTTACATTACTATAATACGGGATGCTTGACATAAAAGAACTTGGCACACTTAGGAATTTATCTGTGAAAAGGAAAACCATTTTAAACAATTAGACTTCTGGCATCCTTCCAGAATGTTTTAAGGAAGAACAGTGTCCCTCATGTTGTAACATGAACTGACAGATTGAACCCCTCAGCTTTCCATGAAAAGTTCTAAAATCCCTTTGTTATTTGAGGTCCTAGCACTTAAATCAATACAATTACTTAGACTTAGAAGCAACAGAACTTAGTGAAATAGTTACACACTTACTCTATGAAAATTAAACCATGCTTTAGGTCCTTCATATATGATTCCAGTGTACTCATACATAATTTCACTGAGCACTCAAAAAATATACATTTACCAGTTAGATGACTGAATTGATAAAATTGCTTAAGATATGAGTTAACAGTTTATTCCTTTCTGGTTAGTAATATTTGCATAGTGACTCTGAATTACTGCATGAAGGTAACTACATTTACCTTTATTCAATTACATTGAAAGATTATTTGTGCTTGGCACACTTGGAAATTTATCTATGAAAAAGAAAGCCATCTTATAAAATAGACTTCTGGAATTCTTCCAGATGTTCTAAGAAAGATAATTTTATTCTAAAATTATAAAGTGATGATCAATTGTTAAAAGAGGATAGCTGAGTCTTCAAAAAAGACTCTTGTCCAAATTCTGAAATTTTAATGGCAAAAACTTCACTGGAGGAATGTTCAGGGTTACACAGAAGTCGATGTTCTCCATGCACAGCATAGGTCAGGAACCAGGACCTATGAGTTCACACCTCTGGCATAAAGATCTCAATTTCTGTATGTTGACATAAGTCTCCTGATGTGGCCTAGAATTAAAGGCAAATTTACATTAATTGTATCATTGAATTATATTTTGTATCAGTAAAGAATGTTTCCATGTCATTAGATGAGATAAAATTTTCTGTTTATGTACAG
Seq C2 exon
TCCAGGTACATAGGGGGAGGGTCCAGTGCTTTCAAGCTCCCACATACAGCACCGCCCATCTACCTAAACTCTGATTTGAAAGGACCACTAACTTCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049252-Lrp1b:NM_053011:89
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151021=TMEM154=PD(11.8=18.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAGACAATTAGAAGGCAGCCT
R:
CCCAGAAGTTAGTGGTCCTTTCA
Band lengths:
243-1985
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: