RnoINT0086473 @ rn6
Intron Retention
Gene
ENSRNOG00000025053 | Lrp1
Description
LDL receptor related protein 1 [Source:RGD Symbol;Acc:1307535]
Coordinates
chr7:70878707-70879165:-
Coord C1 exon
chr7:70879016-70879165
Coord A exon
chr7:70878848-70879015
Coord C2 exon
chr7:70878707-70878847
Length
168 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCCCTCCTGTTGCCCCCAGGGG
3' ss Score
11.58
Exon sequences
Seq C1 exon
GCTTAGCCATTGACTTCCCTGAGAGCAAACTCTACTGGATCAGCTCTGGGAACCACACGATCAACCGTTGCAATCTGGATGGGAGTGAGCTGGAGGTCATCGACACCATGCGTAGCCAGCTGGGCAAGGCCACTGCCCTGGCCATCATGG
Seq A exon
GTGAGGGCTTGGGTGGGAAGAAGGACGGAAGTAAAGCAGGCTAGGCACAGCCGAATGGGGGGAGGCATGTCATGTGGGCCACTTTCCACCCCAGGAGCCTGATGGCTTCTGCAAGAGGGCTGAGCAGGGGACCTTCCCAAGGGTCTTATTCCCTCCTGTTGCCCCCAG
Seq C2 exon
GGGACAAGCTGTGGTGGGCAGATCAGGTGTCAGAGAAGATGGGCACATGCAACAAGGCCGACGGCTCCGGGTCGGTGGTGCTGCGGAACAGCACCACGTTGGTTATGCACATGAAGGTGTATGATGAGAGCATCCAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025053:ENSRNOT00000031005:32
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:
PF0005812=Ldl_recept_b=PD(13.2=9.8)
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:
GCCATTGACTTCCCTGAGAGC
R:
CCAACGTGGTGCTGTTCCG
Band lengths:
247-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]