RnoINT0086685 @ rn6
Intron Retention
Gene
ENSRNOG00000015911 | Lrp5
Description
LDL receptor related protein 5 [Source:RGD Symbol;Acc:1309329]
Coordinates
chr1:218846611-218848860:-
Coord C1 exon
chr1:218848676-218848860
Coord A exon
chr1:218846935-218848675
Coord C2 exon
chr1:218846611-218846934
Length
1741 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TGTGCTGTGTCCCCGCACAGGTC
3' ss Score
10.26
Exon sequences
Seq C1 exon
CTACATCTACTGGACCGAGTGGGGAGGCAAGCCAAGGATCGTGCGGGCCTTCATGGATGGGACCAATTGTATGACACTGGTAGACAAGGTGGGCCGGGCCAATGACCTCACCATTGATTACGCCGACCAGCGACTGTACTGGACTGACCTGGACACCAACATGATTGAGTCCTCCAACATGCTGG
Seq A exon
GTGAGACTGGTGGCCTCGAGGATGGGGTGTGGGCACATATCTCCATCTAGCCCTGGCACCCTTACTGTAGTGTTGGGAGAGGCTTTCTGAGTTCCAGGTCCTAGTCGAACCCTGAGCCAGGACTGGTATTTCACTCTCTACCACATGGTAGTGCTTTTCCTTGGTGGGGAAACTGAGGCTAGGTATGTAGTAGGGCTTGCTTGAGATCACCCAGCAAGGCCACTTTAGAACTCCCGAGGGCCAGATTTGGTCTCCACCAAACTAGTAGCACAAATTCCTTCTGTAACCAGACCCCTTTCTAACCTCTGTATTTAAAAACTAAGCTTTAAATACATAATATTTTAAAAATTTGGGGATTTCTGTATATGTTTTTACTTTGTAGAAATAGTTTTTTGATTGGGCTGTGGATCAGCTGGTAGAATGCTTGCCCACCATGCATAAAGCTCATGGCTTCAATCCCCAGCACACAAACTAAGCGTGGTGGTGTAGGCTGTAAGCCCAGCACTCAGGAGATGCAGGCTGGAGGGTCAGAACGTCAAAGTCATCCTTAGATACATGAGGAATTTGAATTCAGTTTAGGATACATGAAACCGGATGGATGGATGGATGGCCGGCCGGATGGACAGATGGACAGATGGATGGATGGAGAGCTATTTTTGAAACTTTAGTTTAGTTATATACAATTTTCTGCTTTTTTCGTGACACCCCCATATAAGACAAACATGTTCTCATATCACAAGCTTGTTTTTATTGGTACCCTATGTGCCATGATTAGAACACATAAGGAGACATGGGCTTGCACTCACAGGCTGTAAAGTGTAGATGTGCAGGACTGGACCCGTGCCTCGTCCAGAAGCTCTGAGATCCTCTAGGCTCCTTCCTTGCCTAGGACGTTATGCTGTCCCACTGGGCTCTGCCAGGCCTGTACCCTGTCTCTCCCTGACACGGGCCTCACGCCTGTTGTATGCTGGGTGCATTATGTGCTGAGCCCTGGTCAACAGGTCGCAAAGGAAGACCGGTTTGCACAGTCCACTCTCTGTCGTCTGTTCTCAGAGGGGCCGGGCCTTACCTGCAAGATCTCAGACATCTGTTCTTTTTTTTTTTTTTAAGATTTATTTATTTTTATTTATATAAGGTCACTGTCACTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAAATGGTTGTGAGCCACCATGTGGTTGCTGGGAATCAAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACTGTTGAGCCTTCTCTCCAGCCCAGACATTTGTTCTTTTCCATTGCTCCAAGTCTCCACAGGGATGTTACAGTCATGTGACTGTGGGCTCAGGTATAAATGGCCTGTGTACTGAATAGAGAAGATGGATTTAGGCATGCTGGCTCATGCCTGGAATCCCAGCAGTTGGGAGGCGAGGCAAGAGGATCATCATGGGTTTGAGGCCAGCGAGACTACACAGGTAGTCTTCTAGGTCTTCCTAGGCTGCAGACTTGAAACACCGTTGGAATAAGCAAACGAAGATACTATCTACTGAAAGCTCTCCTCTGAGTGTCTTTTGGCTGATGTATAGGTTTCTCCCTGAGGACACTGGGTGGGCTTGCCACATAGGTAGGCAACCGGTCAGCTTCATGAAGCGCTTGGCTGAGAGTCCTGTAAATCAAGGTTGACTGACTCTCCCAGACGCTCCCTCAGCTCATTGGTGTGCTGTGTCCCCGCACAG
Seq C2 exon
GTCAGGAGCGCATGGTGATAGCTGATGATCTGCCCTACCCCTTTGGCCTGACTCAATATAGCGATTACATCTACTGGACCGACTGGAACCTGCATAGCATTGAACGGGCCGACAAGACCAGCGGGCGGAACCGTACCCTCATCCAGGGTCACCTGGACTTCGTCATGGACATCCTGGTGTTTCACTCCTCCCGTCAGGATGGCCTCAACGACTGCGTGCACAGCAATGGCCAGTGTGGGCAGCTGTGCCTCGCCATCCCTGGAGGCCACCGCTGCGGCTGTGCTTCCCACTACACGCTGGACCCCAGCAGCCGCAACTGCAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015911:ENSRNOT00000022213:11
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=65.1),PF0005812=Ldl_recept_b=PU(51.4=30.2)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(45.9=15.6),PF0005812=Ldl_recept_b=WD(100=37.6),PF146701=FXa_inhibition=WD(100=33.0)
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:
TACTGGACTGACCTGGACACC
R:
GTGTAGTGGGAAGCACAGCC
Band lengths:
344-2085
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]