RnoINT0086713 @ rn6
Intron Retention
Gene
ENSRNOG00000006338 | Lrp6
Description
LDL receptor related protein 6 [Source:RGD Symbol;Acc:1304749]
Coordinates
chr4:168204131-168205385:-
Coord C1 exon
chr4:168205149-168205385
Coord A exon
chr4:168204242-168205148
Coord C2 exon
chr4:168204131-168204241
Length
907 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTA
5' ss Score
7.04
3' ss Seq
AAACTCTGCCTTTTTTCTAGTGC
3' ss Score
6.62
Exon sequences
Seq C1 exon
AGCCTCCAACATGTTCTCCTCAGCAGTTTACGTGTTTCACTGGGGACATTGACTGCATCCCTGTGGCCTGGCGGTGTGATGGGTTTACTGAATGTGAAGACCACAGTGATGAGCTCAACTGTCCTGTGTGCTCGGAGTCTCAGTTCCAGTGTGCCAGCGGGCAGTGCATTGACGGCGCCCTTCGATGCAATGGTGACGCGAACTGCCAGGATAAATCGGATGAGAAGAACTGTGAAG
Seq A exon
GTATTAAGAATTCCGCTGTGCTTGGTTGATAGTTCTTTGAATCAAGTTATTGAACATCCAGTGTACTTTTGTTTTTGTTTTTGTCTTGGCTTTTGGCTCAGATTTGAGTTTCGTATTTGACTATGCCATGCACATTATGTATGTTGCTAATTATTTGAACCATTTCATATGTGTAAATTCTGTACAGATTAATGTGTTTATTTTGCTACTTTATTAAAATGCCTTGGTGGTGAATGACTTGGTTGTGATAAAAAACACACTCACATTGTCCAAGGACAACTTAATGAAGAAAGAATTTATTTTGGCCTAAGGTTCCAGAGGGAGAGTCTATAAAGGCAGGGAAGCCGACAGATCATTTCTTCTACTTCAAGCCAGCAAGTGGAGAAAGTGAACTGGGAGAGGGGTGAGACTGTAAGCTTAGCCCATCCCCAGTGATGTCCCCCTCCAGCAAAACTGCAGCTCCCCATAATCTAACGCAGTTCCACTAAATGGGGACCAAGTGCTTAAGTATGTGACCTTGTCATGAAGCATTGTTCAATCAAACCACCACAGTGACATTTTTATAAAGAAGCTTATTTAGCTCACATTCCAAAATGTCAAGGGCAGCTCACTCTACCTCCAAACCACACTAGGGACCAGGGCTCCAACATAGGACCTTTGGAGGAAGGAATATGTTTAGACTATCCAAATAACACCAGCAAGTTCTGAAAATTGAAAAATAGCACCAAAAATTAAGTAAAATAAAAAATTTAAGAGCAAAGCAGAGAATATCATTTCTACCAGTGGGAATCCTTAGAGATAGTACTCACCTTGTGTCTGAGCCTGGTGTTTTAGATTCTACTTAGAAAGTGTTTGATGGAATTTGTCTTTACATGGTGATAAAAATCAAACTCTGCCTTTTTTCTAG
Seq C2 exon
TGCTTTGTCTAATTGATCAGTTCCGCTGTGCCAATGGTCAGTGCGTTGGAAAACACAAGAAATGCGACCACAATGTGGACTGCAGTGACAGATCTGATGAACTGGACTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006338:ENSRNOT00000066575:17
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=48.8),PF0005713=Ldl_recept_a=WD(100=46.2),PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=97.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTCCAACATGTTCTCCTCA
R:
GCAGTCCAGTTCATCAGATCTGT
Band lengths:
346-1253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]