RnoINT0086613 @ rn6
Intron Retention
Gene
ENSRNOG00000056184 | Lrp2
Description
LDL receptor related protein 2 [Source:RGD Symbol;Acc:68407]
Coordinates
chr3:55683351-55687806:-
Coord C1 exon
chr3:55687678-55687806
Coord A exon
chr3:55683483-55687677
Coord C2 exon
chr3:55683351-55683482
Length
4195 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
GCTGAGATTTTGTTTTCCAGATC
3' ss Score
6.98
Exon sequences
Seq C1 exon
GTAGAAAACCAACCCACAAACCGTGCACAGACACTGAATATAAGTGTAGCAATGGGAACTGCATTTCGCAGCACTACGTGTGTGATAATGTGAATGACTGCGGAGACCTTTCTGATGAAACTGGTTGCA
Seq A exon
GTAAGTAAACACTTAGTTTTATATTTCACGATGGTAAAATAACCAGACAGGCTCTCAAATGGCCCAGATGGACCTCAAACACTGTGTAGTCAAGGATCACCTACAAGTTTGTATTCTCCTGGCTCTAGGTTCAAGTGCTAGGATTAGAGGCTTGTACCATCATGTGTGGCTCCTTCTTTTAAGTAGAAGAAAGGGTTGGAGGTGGTTAGTATAATCAAAGGATGGATTTGGTTCACTTGGAACTGTTGAGGTCATATTAGTTCACTCCTTTGACATCCCTTCATAGCTCACATGCACACAATTTAATTGTTACTGCCCCACTGGGTGGCTGGTATTGTCCATCTCAGTATTGATGCTCAAGAAGTTTAAGTCTCTTGCTGAGGAGCAAAGAGAGTAACAGAAGCAGAAATTAAGCGTCTATGGGACTCCAGGCAAGGAGAGTGGCCTCTGGTGCCTTCAGGCAGCTGCTGTGTTATTTTCGACACAGTCTAACCTCTTGCAGTCAGTCAACTAGCTATTGTGTGTATGCGTACTCAAGCATGCCATAGGGTGTGTACATCAGAGTAAAATTGTATGGTATGGTTCTTTCCATAGGTTCCAGACATGGAACACAGGCTGTCCCAGTGGCCTCTGTGGGAGCTATTTAAACTCTGAGAGCCTGAAACTGGTTCTTTAGCTCCGTGTGTTTTCAACTTCTTGGGTATTACATGGTTCCCTCCTGAATTGTCCATCTGCCCCCCAACCCCAGCCATACCCTGAGGCATCCAGAAGACTTTTTGATAGTTACTAATGACCACACTGAGTTGGCTTGCCACTAATCTCACCCTTTCAGAGGGACTTGGAGCGCTTGTTAAAATAAAGTGACTTGATTAAGTTTTTGATAGAATTTGGAAAGCCAGGTGGCAGATTTTGACACAGAGACTGATACGTAAACAGCTTCAGAAGGCTAGCAAATTTCCAAGTTTGACTTATGCTAAATGAGACTTCCTCTTGTTGCCTGTGCCTGTGTTTAGGGCAATACCTTCTATTCAAGTGGAATTTCACTGAAAGTTGGTTTAGTTAAAGGAAATAAGCAGTATCACATTAAATTCTTTTTAGATGTGACATGGAATTCAGATATGGGCTTGTCATTCATTTGACACGGGTATAGAATTCTTTCATCTTTCTTTCTTTTTCTTCCTCTTTTTTATTTCAAAACAGGGTCTCACTGTGTAACCCTGACTGTCCTGGAACTCACTATGTAGACTATAGTGTCTTTGAACTCATGGAGATCCACCTGCCTCTCCTTCCCACATGCTGGGATTAAAGGCGAGCTCCACGAGGTGTAGAATTATTTATGATGCCAGTGCTCAGGGTCCCCCAGGCCCCTTACCTTTTTCTCTTCTTTCTTCCTGGTTCCTCACTACTTCCCCTTCTCTTCCTCCCTTTACATTCTGTGTCACTGTTGAAGTCAAGATAGGAGTTTTAAAAAATTAAGATGTAGATCATGATGTTTTGAAAATACAGAGAGAAATCATTGCTTATGCATCACATGCATGTGACACGTGCATCGCCTGAGCGTGAGTGTGCCTAGAGCCCCCAGACCTGTCAATTACTACATTTTCAGTCATGGGAAGACATGCACATTTTCCTAGCACTATTTGATTATAGAGGAAATAACTCGAAGTCAGGCTGCAGATAGAATTTCTGTGATTGTAAAGGTAAAGTAACTTGCTATTTCTGTGACATTTTTATTCCTTTTCTTTAATAAACTGGAAGCTAGACCGGCTGGCTTATAAAGAGAGATCCATATGCTTATGTTTGTAGAAGCTGGTTGCTAGGCAACTGCTCTGGCACAAAGCTGCACGCCCAGCCTTAATGTCACTGTTCCATGGACCAGGGTGAGGGCTAGATGCTCCTGGTCTTCAGATGAAAGAAGTTGTGTGGAAATCTTCCATCCCAAATGCTGTGATAGCTCTGCTCTTGTTAAGGCCTCTTACCTTGGAGGAATAATGATTCAGTCAAAGGAGCGCTTTCTGTATTCTGGATCTCTAAATTACGGTTGGACTTCAGAGATGAGAGAGGACTGCACAGTCCAGTGGTAGAGTCGTGAGAACGTTTCGCTGTAGAGATACTATGGCATTGCAGAGAGAATCACAAGCTTGCCAACCTGTGCAAAGCAGAAAAATTCCCAGAGACACCCAAAACGCTGAAACTGTCCCATGAAGAACTAGGAAACTTGGAAAGGTGTATTTATTTTGCAATATATAGTTATTGGCAGCTCAGACGTCTAAGCTTTCACGACTGTAATTGTAAAGTGGGCAGTGGTCAACTGAGTGGCATTCTCCTACTCTTGAAACTCATTGTTTTTAGTCTATCCTAAATCTATAAATGAATACCTTCATTACGCCATAAGGAATCCTGCGATGCGGTCAGGGAGACAGAAATAGAAGCCTCCTTTCATCTGAATCAGGAAAGTCCGCATTTTCTTTAGCTGAAATAATTATAAGCCGGTAGCCAAAACACATTTCATTTGAAAGGTAGATGAGGCTTGACTCCTGAGGCCAACACGGCTCACCACTCCCTCATTTAGCTTCTCCACATGACCTAAGATTGGGAGTAGGTGACAGAGGATGAAAGAAAGCTGACAGTGACAGGAATGGGTGACTTGTAGAGATTGCCAGGGACAAGATCAACAGGCAAGGATGAGAAAAGGGATTTGGACAGAATCCATGCTGTGAGGAATTTATCCTGGATAATGTAGACCTCAGAAAATTAGGGATAAGAATAGCCTTTTAGCAGGCTCCAACACAAACAAGCTATCTTTTGCTTATTATAAAGACAATAAAGTCTAGAGATGTTAATAATAAGTAGAGACTGGGTGTAGCTCAATATTCATGTCGTAGAGTGGCATGCATGTTTAGCATGTGCAAAGACCTAAGGTTGAAGACTCAAGCACCAGAAGAAATGAATTTATCTAAATCTCATAACCAATAAAGCTTTACTCCACTTTGTATGTTATTTCTACAGTTGATACACTATTTTAAACAATGTTGCAGTCTTTTTCCGTTTGTTTTTAGATATTTCCCATAGCAAAGTATCATTTGAAGCCTCAGATCTTCATAACAACCCATAATATAAATAATCAAAACACATCGTTTCTGAGATATATGCTTCCTTTTATATTTTAACGTCTCAAAATGAAGTACATTTTACAAATCATAACGTGTCATAGTGCAAGTTCTCATTTTCTGTATCACTAATGGTGTATCAGTGGTAACTTAGAGATTTAAGACAGCACAGTGTATCTTATTTCTTCCTTACTGTTGAAAATATAATTATGCTCTTTTTAAAAACCTGTCAGTGCTATAATCCTTAAACACAAATCGTAGCACATCCTTTTATCCCTCCCTAGGGGAAATTCATTAGTAGAGTGGCAGTAAAAAGATATGAATATATTATTTTTATTGATTATCTTCTGTGTTGCTGGTAATGGAACTCGGGGCCTTCTGCGTGCTGGGTAATTCTTTATCACTAAGCTACAATGGCAGCCAATCAGGGGTATCATTAAAGTAGTGTAAGAGGAATGTATATTATAAAATTCCTGCTATATATACTAATTAAAGGCTTTAGATATGAACTAGACAAATTCCTAGGCAGACACAAACACTAAACTGTATCAAAAAGTATAAAAGGAAACCTGAACAAACTTGTTTAGCGATGTGTAGTTGTTGAGAGTTCAGATTCAGTCTTTGTAATAAGCATCTTGTGTGTGTATGTAAGTGTATCTTACTACACCTCGATAAACACTTTCAATTAATTGGCTAATACTAGGCAAAATTATAATCTTATAACTAATTTTGTTCTAACCCCCCCTCTCTGTGTATGTGTGTGTTTGCACATGCGCACAAATATACTTACTGTCTGTCTACCTAATCGCATAATGAGCAAGAACATGCAGTGTTAGCTGTGCAGCCTCTGGTTTCATAATTTCTGGCTCTGGTGTTGGATACTGTGTTTGAGGTGAGCCTGGTAGAGCTGTGTATGATGGGAAATGGCCTCACGGCTCAAAGACCAGTGCACATTTGTGTAGATGACATCAGGGCTTCCGGAAAAGGGTCATATGAAGGCGCTGTGTAGTTGGCCATGTGTCTGTGTGCTGGTGGCTGACCTGCCTCTTATCCTTCACTTACAATGCTGAGATTTTGTTTTCCAG
Seq C2 exon
ATCTAGGAGATAACAGAACGTGTGCTGAAAACATATGTGAACAGAACTGTACCCAGCTGAGCAGCGGAGGCTTTATCTGCTCCTGCAGACCCGGGTTCAAACCCAGTACTTTGGACAAAAATTCCTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056184:ENSRNOT00000082624:63
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=PD(0.1=0.0),PF0005713=Ldl_recept_a=WD(100=84.1)
A:
NA
C2:
PF126622=cEGF=PU(84.0=46.7)
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:
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]