RnoINT0086581 @ rn6
Intron Retention
Gene
ENSRNOG00000056184 | Lrp2
Description
LDL receptor related protein 2 [Source:RGD Symbol;Acc:68407]
Coordinates
chr3:55729343-55730101:-
Coord C1 exon
chr3:55729992-55730101
Coord A exon
chr3:55729521-55729991
Coord C2 exon
chr3:55729343-55729520
Length
471 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TATTTTTTTCTGGGTTCTAGGAA
3' ss Score
9.63
Exon sequences
Seq C1 exon
GTGTTGACGCTCAAGGGAGATACGAGGTATGGAAAAACCCTGATTGCCAATGACGGCACCCCCCTCGGAGTTGGTTTCCCCGTTGGCATAGCTGTTGATCCTGCACGTGG
Seq A exon
GTGAGTGATATCAAGTGGCGGTTATGTTCCTGTCGGCACCATCTCTGTCACCCATCGTCTGTTGGATGAAGTGTCCTGTTAACATTTCAACTGTAGGGTGGGTGACATTTGAACACGGTAGACCCCAGTGAGTAAGGGCAATCATTGTGAAGAGCAGCGGTAACTCTGGATTATGTTGAATGTGAAGGGTATATAAGGAGATAAGCTGTGTCTTCTTAATGCACCCTATGCAGGAATTGTAATTACTGAACAGTACAAGACAGAACAACATTCTGACTTATCAGACCTTAAAGGCTGAGTAGATGGGAAATTTTACCATCCCGTCTTCAGTACCATTTAAAAGGGCACGTAGACCCCCATAAGAGCACTATGGAGACAGTGGCAGTACGCTGGTTAAAAGCTCCCCTACATTGTGTTGCCCTTACCCATTTCCTGGTTCATGAAGCACTCATATTTTTTTCTGGGTTCTAG
Seq C2 exon
GAAACTATATTGGTCAGACCACGGGACGGACAGTGGGGTTCCTGCCAAGATCGCAAGTGCTAATATGGATGGAACATCTTTAAAAATTCTCTTCACTGGGAACCTGCAGCATCTGGAGGTTGTCACCCTGGACATTCAGGAGCAGAAGCTGTACTGGGCAGTCACCAGCAGAGGCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056184:ENSRNOT00000082624:34
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=0.033
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=76.7),PF0005812=Ldl_recept_b=PU(28.2=18.3)
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:
GTGTTGACGCTCAAGGGAGAT
R:
ACGCCTCTGCTGGTGACT
Band lengths:
287-758
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]