BtaINT0086808 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010830 | LRP1
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr5:56569467-56569860:-
Coord C1 exon
chr5:56569741-56569860
Coord A exon
chr5:56569590-56569740
Coord C2 exon
chr5:56569467-56569589
Length
151 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
TGTCCCTCTCGCCGTTGCAGCCA
3' ss Score
10.05
Exon sequences
Seq C1 exon
TGCGGACCTGCCCCCTTGACGAATTCCAGTGCAACAACACCCTGTGCAAGCCGCTGGCATGGAAATGTGACGGCGAGGACGACTGCGGGGACAACTCAGACGAGAACCCAGAGGAGTGCG
Seq A exon
GTGAGGCTCCAGGGTGGCTGCCGGGCTTCCAAGAGGGCGGGGTGGGGCGGGGCTCCAGACGGGGCGGGGCTCTCCCGCTCCCTGGAGGCCCTCAGCCAGGGTGGGGGTACCCCCAAGGCTGATTCTAACTCTGTCCCTCTCGCCGTTGCAG
Seq C2 exon
CCAGGTTCGTGTGTCCTCCAAACCGGCCCTTCCGTTGCAAGAACGACCGCGTCTGCCTATGGATCGGGCGCCAGTGCGACGGCACGGACAACTGCGGGGATGGGACGGATGAGGAAGACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010830:ENSBTAT00000017556:72
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=95.1)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=90.5)
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:
CTGCCCCCTTGACGAATTCC
R:
CAGTCTTCCTCATCCGTCCCA
Band lengths:
234-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]