RnoINT0086701 @ rn6
Intron Retention
Gene
ENSRNOG00000015911 | Lrp5
Description
LDL receptor related protein 5 [Source:RGD Symbol;Acc:1309329]
Coordinates
chr1:218863965-218866165:-
Coord C1 exon
chr1:218865769-218866165
Coord A exon
chr1:218864137-218865768
Coord C2 exon
chr1:218863965-218864136
Length
1632 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
GCCGTCTGCTTTTTCTCTAGCCT
3' ss Score
8.35
Exon sequences
Seq C1 exon
GGGCTGAGGAAGTGCTGCTGCTGGCCCGGAGGACAGACCTGAGAAGGATCTCTCTGGACACCCCTGACTTCACAGACATAGTGCTGCAAGTGGGCGACATTCGGCATGCCATCGCCATCGACTATGACCCACTGGAGGGCTACGTGTACTGGACAGATGACGAGGTGCGGGCTATCCGCAGGGCGTACCTGGATGGCTCAGGTGCGCAGACCCTTGTGAACACCGAGATCAATGATCCCGATGGCATTGCCGTGGACTGGGTCGCCCGGAACCTCTACTGGACAGATACAGGCACTGACAGAATTGAGGTGACTCGCCTCAACGGCACCTCCCGAAAGATCCTGGTGTCCGAGGACCTGGACGAACCTCGAGCCATTGTGTTGCACCCTGTGATGGG
Seq A exon
GTAAGGCTGAGACTGCAGGTGGGCTCGGGACAGGCCTTGCTCCCCAGCCCCTGAGATATTCAGAGTTCTGAGCCAGTGAGTAGGGCTGGTCTAAAAAGACTATTTCTCAGTCAGCTTGCAGTGCTGCGACTGCAGTTGGTCCTTAGACTGGACTTGGAGGAGCTCAGGGACAGGCCATGGGGCAGTGGTGAGAAAGACTGGAGGGCTGGGTGATTGACTCCATTGCTGCTTAGCAAGAATAAGGACGGAGCTGAATCTTAGGGGCCACAATAAAAACAAACCCTAAAGAGCTGGATGGGGCTCGAGAGATCTCTCAGCAGTTAAGTGCCTGCTGTGCAGATGTGCTGAGAAGCTCGGGTACCCAGAAACCCATATCGGTGCCACATAGACATGGCTAAGATAGAGCCTCTGACCCCAGCATCTGTGCCTGGTGGTGTGCAGGGCTCCCGAGCTAGAAGGTTAACTGACCAGACCCTAGCGGGGAGGGTGCCGTGGAACTCTGGGGGTGGCGCTGGGTGGGATCGGAAAGAGTCCGCACTTAGTGCAGGGTGTGAACCTGTGTCTACGGGACAGGGCTGATCAGGAGTCGTGGCCACAGTCTTCTGTAAGCCCAAGTGTGTTCCCTGTTGCAGCGAGGAACGGAGCTCAGCAGGAGCTGCAGACGCCCACGGGTGCTGATGCCTCCACTGCATCCTGCCTGCCTATGGGCCCTGCCCCAGGCTTTTGGCACAGCCCATTGTGGGGCCCTGTGAGCCAAAGGGGTCGAAGGGGTTATGTGTGGAGATCCAGGAGTGGGTAGCAGGGAGCAGCGGTTAATATCTGGAGTGTGGGGGAAGGCTCTGTGCTGCAGTATCTCTTCAGTGACCTTGGGCCCAATATAGGCAGAAGAATTTGCTCTGTGGTAGTTGTCAAAGTGCAGGGTTGTCCCCAAAGAGGGTGGTGACAAGGAGCACTGGGGTCATTTGATGCTGTGGGTGAGGAAGCAGGGGGTCTGGTGGTCAGCTCAGGTGATGAGTCAGGAAGCTTAAGAAACTACTCCCAGCTACACCAGCAGAACTCAGTGAGGCCACAGCACCCTGGCCACAGAGGTCTCGTGTGTGAGATGAGGTAGGAGCAGAGTCAGGCCCCTCCCAGCCTGTGACTTCTGAGCCTGAGGATACAGGGAAATGGGATGGCCAGGTCCCAGGCAGTGTTTCATACAGAGGGGACCCAGAGGCAGGTCACAGGTAGCAGGAGACAAGGCTCTGTCCTGAGCCCAGAGTGGCCTGCATTTTCTTGAATTAAAACTTCTGCCCTGTGCCGTCCTCCAGATTTTTCCTCGGGTTCAACATCCTGAGTATATGGGAGCTTTCCTTCTGTTTCTAGAAGGCTCCCTGTTGCCCTCCTCCCTGATGCTCTGGACTCTAGCAAACAGGTCAGGGACAAGGGTGCCCCAGATGATCTACAGGGTCACTTTGAAAATTCCCCCATGGGGTGGGAGCGGAGCCTGCAGCCCCTGGGGGGCCCAGCATTGTCCTGTGCTATGGGGCTGCTCAGATGCTCCTGGTGAACTGTCGGCTAACAGGCTAGGGTAGGTGTGGCCCTCAGAGTTGGCAGAACAGACACTATCATGGCCGTCTGCTTTTTCTCTAG
Seq C2 exon
CCTCATGTACTGGACAGACTGGGGAGAGAACCCCAAAATCGAATGTGCCAACCTAGATGGGCGAGATCGGCATGTCCTGGTGAACACCTCCCTTGGGTGGCCCAATGGACTGGCCCTGGACCTGCAGGAGGGCAAGCTGTACTGGGGGGATGCCAAAACTGATAAAATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015911:ENSRNOT00000022213:6
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=WD(100=30.8),PF0005812=Ldl_recept_b=WD(100=30.8),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=72.4),PF0005812=Ldl_recept_b=PU(33.3=22.4)
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:
GGGCTACGTGTACTGGACAGA
R:
GAGGTGTTCACCAGGACATGC
Band lengths:
351-1983
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]