RnoINT0086495 @ rn6
Intron Retention
Gene
ENSRNOG00000025053 | Lrp1
Description
LDL receptor related protein 1 [Source:RGD Symbol;Acc:1307535]
Coordinates
chr7:70864241-70864773:-
Coord C1 exon
chr7:70864645-70864773
Coord A exon
chr7:70864364-70864644
Coord C2 exon
chr7:70864241-70864363
Length
281 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
CTCTCTACCTCCATCCCCAGTGT
3' ss Score
8.94
Exon sequences
Seq C1 exon
AAGGCAAGACTTGCGGCCCCTCCTCCTTCTCCTGTCCTGGCACCCACGTGTGTGTCCCCGAGCGCTGGCTCTGTGACGGTGACAAGGACTGTGCTGATGGCGCGGATGAGAGCATCTCAGCTGGCTGCC
Seq A exon
GTGAGTGGGAGAGGCCGTGAGGAGTGGGTGGGCAGCCAACATCACAGCCCTGCTCTGCCAATGCCGGCAAATGAATGAGGTCAAGGGTAGGAAGGACTTCAGTCGGTCTGTGAGTGTAGAGCCATAGCCTCAGCTCCTGGATCCAGACTCCTCCCATTCTGTCCGATGCCCCCACGCAGGTCCAGGAACCTCAGGATGGGGGTGGGGCGACCATCAATAGCTAGTAGGTCAGGGCTGGAGCAGGGCAGGCCTGAGGAGGGACTCTCTACCTCCATCCCCAG
Seq C2 exon
TGTACAACAGCACCTGTGACGACCGTGAGTTCATGTGCCAGAACCGCCTGTGTATTCCCAAGCATTTTGTGTGTGACCATGACCGCGACTGTGCCGATGGCTCTGATGAATCCCCTGAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025053:ENSRNOT00000031005:52
Average complexity
IR
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:
PF0005713=Ldl_recept_a=WD(100=93.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=90.5)
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:
CAAGACTTGCGGCCCCTC
R:
CTCAGGGGATTCATCAGAGCC
Band lengths:
244-525
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]