RnoINT0086619 @ rn6
Intron Retention
Gene
ENSRNOG00000056184 | Lrp2
Description
LDL receptor related protein 2 [Source:RGD Symbol;Acc:68407]
Coordinates
chr3:55676488-55677547:-
Coord C1 exon
chr3:55677327-55677547
Coord A exon
chr3:55676665-55677326
Coord C2 exon
chr3:55676488-55676664
Length
662 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGC
5' ss Score
5.61
3' ss Seq
TTTCTCCTATTTCTGTGCAGCGA
3' ss Score
10.36
Exon sequences
Seq C1 exon
GCTTATGTTCTGGACTGACCAGGGAAAACAGCCCAAAATCGAGTCTGCCTGGATGAACGGGGAACATCGCAGCGTTCTGGTTTCTGAGAACCTTGGCTGGCCAAACGGTCTTTCCATAGATTACCTGAATGATGACCGGGTCTACTGGAGCGACTCCAAAGAAGATGTCATTGAAGCCATAAAATATGATGGGACTGACAGGAGACTTATCATAAATGAAG
Seq A exon
GTTAGCAGTTAGGATTTGTGTCCCAGTAATGCTCTAACATATTTTCACTAAGTCTTAGGATACGGCTTATGTAATTCCTCAGATTTGTTTCCACCCGGCTGCTCTATTAAATCCAAACTAATTCACAACAATAGTCCTTTTCACATTTCACAGATCGGATCATGAAAGAACTAAGGTTTCTGTTAGGCCCCTCTGAGACTGTGTCTTCCTGATGTTAAGTCTTGTGTGTTCTTACTAATATATGTATAACTGCCTCTAGGCCTGTTCATCTTCCGTGTGCTAGCCTGTTCTCATTTGCCATGTGCTGGCCTGTTCTTGTGCTCAACCAGAAACATGTAAGGAAAGGAGTGTTTTGTTTTATTATTCAAAACCTAAAACAGACATCTTACAATCCAGGACATACCACATTTCTCCTTACTGGCTAGTATTCTCTTACATTTGAAGTGGGGGATGGGGAGGGTCTTAGCATTGTTTTTAAAAGATGGAATTAAATGGGCAGCTTTAAAGTCAGACCATTCATACCGACTCGGTTTAAGTTTTCCTGGATTCTCCATGTGCCTCTTTCAGAAAGTCTGCCCAAGCACACTACATAATTACTTCCAGCCAAATGACTGGGTATCGTGGCTCACTAGCTCTGCTCTGTTTCTCCTATTTCTGTGCAG
Seq C2 exon
CGATGAAGCCCTTCAGTCTGGACATCTTCGAAGACAAGCTATACTGGGTAGCTAAGGAAAAGGGAGAAGTGTGGAGACAAAATAAATTCGGGAAAGAGAACAAAGAGAAAGTGCTGGTGGTGAACCCGTGGCTCACTCAAGTTCGAATCTTCCATCAACTGAGATACAATCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056184:ENSRNOT00000082624:69
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=56.0),PF0005812=Ldl_recept_b=PU(74.4=38.7)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(23.1=15.0),PF146701=FXa_inhibition=PU(0.1=0.0)
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:
GACTGACCAGGGAAAACAGCC
R:
TTCGAACTTGAGTGAGCCACG
Band lengths:
356-1018
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]