RnoINT0086721 @ rn6
Intron Retention
Gene
ENSRNOG00000006338 | Lrp6
Description
LDL receptor related protein 6 [Source:RGD Symbol;Acc:1304749]
Coordinates
chr4:168235033-168235990:-
Coord C1 exon
chr4:168235774-168235990
Coord A exon
chr4:168235323-168235773
Coord C2 exon
chr4:168235033-168235322
Length
451 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TGTAACATATTTTCTTTTAGGTT
3' ss Score
10.93
Exon sequences
Seq C1 exon
GTTATGAATACTGATGGCACTGGGAGGCGAGTGCTGGTGGAAGACAAGATCCCTCACATATTTGGGTTTACCTTGCTGGGCGACTATGTTTACTGGACTGACTGGCAGAGGCGGAGCATCGAGAGAGTGCACAAGCGGAGTGCAGAGAGGGAGGTCATAATAGACCAGCTGCCAGACCTCATGGGACTGAAGGCCACAAGCGTTCACAGAGTCATTG
Seq A exon
GTGAGTCGCCCCAGAGTCTCTGAGTACATCTAGACCTAGAAAAGATGACGAGAAGCAGCAGAGTGTAAGGTGAATCGTTGATGCTTGAATCAATTTAAAATCATCTTTACTATACCTGCCTCATATGCTGACGTCACAGTGTGGTCTGCTGCGTGTAGATCCATAGGCAGCCAGTTTTGTCAAAGGAACTCATTGTGAGATATATATATATATATATATATATATATATATATATATATATATATCTCACCTTAGTTTACAGCTTACTGTAGGTACAAAAGGTTTGCTGGTATTTTTCTCACGAGTAATCCTGATACTGCTTGTTTATAAAAATAGAGTTGGAACTAGGTTAGGACTAACACAGTCATATCCTTATGAACTAAATGTGAATATGTGTTGATTTTGTCAATGTGTGTGCTTTTCTGTATTTTTGTAACATATTTTCTTTTAG
Seq C2 exon
GTTCTAACCCCTGTGCTGAGGAGAATGGAGGATGTAGCCATCTTTGCCTCTACAGGCCTCAGGGACTTCGATGTGCCTGTCCCATTGGCTTTGAGCTCATTAGTGACATGAAGACATGCATTGTTCCTGAGGCTTTCCTTCTGTTCTCACGGAGAGCAGATATAAGACGCATCTCTTTGGAAACAAACAACAACAATGTGGCCATTCCTCTCACGGGTGTCAAAGAAGCTTCTGCTTTGGATTTTGATGTCACAGACAACAGAATTTACTGGACCGATATATCCCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006338:ENSRNOT00000066575:7
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=PD(61.5=32.9)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=37.1),PF0005812=Ldl_recept_b=PU(24.4=10.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGTGCTGGTGGAAGACAAG
R:
TCTGCTCTCCGTGAGAACAGA
Band lengths:
350-801
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]