RnoINT0086579 @ rn6
Intron Retention
Gene
ENSRNOG00000056184 | Lrp2
Description
LDL receptor related protein 2 [Source:RGD Symbol;Acc:68407]
Coordinates
chr3:55732717-55733503:-
Coord C1 exon
chr3:55733337-55733503
Coord A exon
chr3:55732861-55733336
Coord C2 exon
chr3:55732717-55732860
Length
476 bp
Sequences
Splice sites
5' ss Seq
CCGGTACGT
5' ss Score
10.49
3' ss Seq
CACCCTTGTTTTCTTTCCAGGGT
3' ss Score
10.83
Exon sequences
Seq C1 exon
GTGACCAACCTTTCTTGATGTCCGTAAGAGACAATATAATTTTTGGAATCTCCCTTGATCCTGAGGTGAAGAGCAATGATGCCATGGTCCCCATATCAGGGATACAGCATGGTTATGATGTTGAATTTGATGACTCTGAGCAATTCATCTACTGGGTTGAGAATCCG
Seq A exon
GTACGTTTTGGATGCATTCAGTGTGTACAGTCATTATTTAAGTTCCCTCAGGGAATTCCAACATGATGTTTAATGGAGCTCCTGGGGACTTTGGATTAGAATCCTTGCTTCTGGGGCAAATGTTTCTCCAGTACCCTCCTGCTTGAGACTCTTTCTTTCTTCATGGAAGCAATCTGTCACTGTGAGAAAAGTGCAAGGAGAAAGAAAGAAGGAAAGATGAGATCTTTGTGTTTGCTGTCTGTCTTGCTTATGACTTCTGAGCCATTTTAGAATGTGCTTTTAATTTTTAATTTTGAGACTCTGTACAAGAGGAATTTTTTTTCCCAAGAGGTCAGGCACTCAACTTTGCTCACTTTTTCCCAATGACTGAGGGGCATCAAGAGAACACTGGCAGCCAGCAGAGACTGTAGGGAGAGAAGAGGGGCTGGGTTGTGTCCCTGTGTCAGAGTAGCTCACCACCCTTGTTTTCTTTCCAG
Seq C2 exon
GGTGAAATTCACAGAGTGAAGACTGATGGCAGCAACAGGACAGTGTTTGCTCCTCTGTCCCTGCTGGGGTCTTCTTTAGGCCTGGCCTTGGACTGGGTATCAAGGAACATTTATTATACCACTCCTGCAAGTCGGTCCATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056184:ENSRNOT00000082624:32
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=0.021
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:
TGACCAACCTTTCTTGATGTCCG
R:
CTCAATGGACCGACTTGCAGG
Band lengths:
310-786
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]