RnoINT0086692 @ rn6
Intron Retention
Gene
ENSRNOG00000015911 | Lrp5
Description
LDL receptor related protein 5 [Source:RGD Symbol;Acc:1309329]
Coordinates
chr1:218826543-218829533:-
Coord C1 exon
chr1:218829342-218829533
Coord A exon
chr1:218826654-218829341
Coord C2 exon
chr1:218826543-218826653
Length
2688 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
CCGCCCCTTTCTCCCCACAGCTG
3' ss Score
12.63
Exon sequences
Seq C1 exon
AGCCTCCTACCTGCTCCCCTGATCAGTTTGCATGTGCCACTGGTGAGATTGACTGCATCCCTGGAGCCTGGCGCTGTGACGGCTTCCCTGAGTGTGCTGACCAGAGTGATGAGGAAGGCTGCCCAGTGTGCTCTGCCTCTCAGTTCCCCTGTGCTCGAGGCCAGTGCGTGGACCTGCGTTTACGCTGCGATG
Seq A exon
GTGAGGCTGACTGCCAGGATGGCTCGGATGAAGCTAACTGCGATGGTGAGGCCCTGCCCTGCCGACCCTGGCTGCTATCTCCCACCCACATCCTGTTAAAGTCATTTGTCTTGCCTTCCTACACACCAAGCACTGGGCTCCATTTTTGCCTCTGGGGGTGCTAGAAAACAGTTAAATTGGCAGGCCCTCTCGGTGGGGATCAATGAAGTGAGTTTTAGGCACAGCCTGAAGCAGTGCTCCTACCCCATCTGTCCTACTAGCAGTTGACTTAAAGAGAGGCTGAGGCCCTGCTCCCATTTCCACATTTGGTAGTGACCTCTGCAGAAATGTGAGACAAATCCAGTGGTCGGCTAGTTGCTTCTAGGGCGCACACCCAGTACAGTGTCATCTTCAAAGGCAGTGCTGCACTGCACCATCTGTGGGACAATGCTGGCCACCTGCGACCACTCTGACCAGCAAGATCTGCATTTTATATACAACTATATACTTTTTTCTTTCTTTTTTTCTTTAGAGAGAGGGTCTTATGTAGCCTAGGCTAACCTTGAGTTTGCTTTGTATCTAAGGATGGCCTTGAACTTCTGATTCTTTTTCTAACCCCTGCTTGCTAGGATTATAGACACACATTACCAATGTGATATGTTGAGGACCAAACCCAAGGCTTCCTAAAATGCTAGGCAAGCACTCTATCAACCTAGCTACATTTTTTAGGCTCTTTTTTTCTTTCCTTTTCTCTCTCTTTTTCTCTTTCTGCTTCCCCCTACAAGACAAGGGTTTCTCCATACATCCCTGGCTGTCCTGAAACTCTATAGACCAGGCTAGTCTTGAACTCCCAGAAATCTGTCTGCTTCTTCTTCTGAGTGCTGAGATTAATGGTGTGACCACCACAACCTGGCCCTCAGCCTTCTCTTTAGGGCACGTGTGAGTGTACGTATTTGTTTGCGTGTGCGCACACACATGCATGTGCGTTCATACGCGCAAAGCATCTTTATCTGCCAATCAGTGGTTCTCCACCTTCCTGATGCTGTGACCCTTTGATACAGTTCCTCATGTTTTGGTGAGTCCCAGCCAGTTGCTAGTTCATAGCTGTAATTTTGCTACCGTTATGAGTCATGATATAAACATCTGATATGCAGGATATCTTATGTGACTCTGTCAAAGGGTCTTTTGAACATCCCTCCCCCCCCAGGAGTTTGTGACACCCACAGTTTGAGAGCTGCTGCATTAAGGCATCTCGCTGGCCAGCCCTTAATTAAGATCTTTTTAAGTTTAATTTTATATGTAAGGTGTTTTGCTTGTATGTATGTATGTGTACCTGCCTGGTGCTTTATATATAAGGTGTTTTGCCTGTATGTATGTGTGTGTGCCTGCCTGGTGCCTTCAGAGGCTGTGGATTGCCTACAACTGGAGTTACAGATGGTCATGAGCCACCATGTGGATGCTGGGAACTGAACCCAGGTCCTCTGGAGAGCAGCTGGTGTCTCCTGGCTGCTGACACATCTCCTGCCCTCACTGACCCTCCTGTAGCTCTTTCCAGTGCAATGCATCTCTTAGTACTTGCTGTGCATGTCCCTCTAATATATGACTCACACTGAACTTTGTCACTTGCTACATGTTCTTGGCACCAGAGACCCAGATCTGGCCCTGAGCCATTCTTGTGGCATTCTTCCCATCTCTGCCCCAAGCTGCTGGGTTATGTTCTTGGTGACTCAGAAGCTGTCTGCCACTCTCCTGCATCCTCATTCAGTGTGACCCGATGTTCTGTAGGGGACAAGACCTAGAGTGACCTTAGCAGGTTTCTCTGTGCAGCCATGGTGATTGCCCTGCAGCTCAGCAGTGCTCTGAGGATCTGGTGGAAGCTATGATGACTGCACGTGTGTCCAAACAAGGTAGCTGCCTATGTCTGTAAATAAAGGTACACTGCTCTGGCAGGCCCAGTTACTCCTGTACCTGTGGGCCACTCTCAGGTTAAACAGGAGCACTTGGTGGTTGGTTACAGAGCCAGTAATGTCTGCTTCTAGTTTCAGAGTGCCATATGTGATCAGCTTAGAATCCCTCCCTCATCCCACTCACCTGCCTACTCTCCTCCCCACCAGTAGCAGGTGCTGGCCCCCTACTTCCAGGAAGGAGAGAGTGCTCTTGTCTCCTGGCCCCAGGTTGGCCCCTGGAGCATCCAGATAGATGGTTGTGAGAGGATGCCAAGGCTCTTCCCCCTGGTGCTTCCTCAGTGTGCTGTGTTCTGCAGGTTTGCTTGCCCACTCTCCCCTAGATATCAGAGGAGATGGCTTTGGTCCCTACAAGTACAACCTCTACTTTCCTGGAGTTCTGGGCTCCACTGACCCAGCCCACCGTTGCTACAGAAGTGGCAATTCTTGCTGACTCGACTTCCCGGAAATCCTGCTGTCCTTGCTCTGTGCTGTCTGACTCAGGCTGCATGCCTCCTGGGCACAGGCTGGGCATCACAGTCTCTTGCTTACTGTCATGGTGAGGTAGGTCCCTGTGCCCTCTGGCACTGAACGGACCTAGGAACAGGGGTCCTGTTCTTTAAGACTGGATTCTCCATGATCTTTTCTAGCTGGGTCCTAGAAAGTATTCCTGCTGTTGGACCTTCATTTGGAACCAGACCTTTGTGGTTGGAGGCAAAGTTGCTGCCCTCTGGCTCCTCTGAGCACCGCCCCTTTCTCCCCACAG
Seq C2 exon
CTGTCTGTCTCCCCAATCAGTTCCGGTGCGCCAGTGGCCAGTGCGTCCTCATCAAGCAGCAGTGCGATTCCTTCCCCGACTGTGCTGATGGATCTGATGAGCTCATGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015911:ENSRNOT00000022213:18
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:
PF0005713=Ldl_recept_a=WD(100=60.0),PF0005713=Ldl_recept_a=PU(92.0=35.4),PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(4.0=2.6),PF0005713=Ldl_recept_a=WD(100=97.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]