BtaINT0086765 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010830 | LRP1
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr5:56592343-56592749:-
Coord C1 exon
chr5:56592600-56592749
Coord A exon
chr5:56592484-56592599
Coord C2 exon
chr5:56592343-56592483
Length
116 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
ATCCCTTCCTGCCTCCCCAGGGG
3' ss Score
10.56
Exon sequences
Seq C1 exon
GCCTGGCGATCGACTTCCCTGAGAGCAAACTCTACTGGATCAGCTCCAAGAACCACACCATCAACCGCTGCAACCTGGATGGGAGCGAGCTAGAGGTCATCGATGCCATGCGGAACCAGCTGGGCAAGGCCACTGCCCTGGCCATCATGG
Seq A exon
GTGAGGGCCACTGGCCTGGGAGCCAGGGGCAGGAGCAGAGCAGGCAGGGCCAGGGAGACAGGGCTGGCCTGGGGTGGGGCCTTCCCCAAGGGTCTCATCCCTTCCTGCCTCCCCAG
Seq C2 exon
GGGACAAGCTGTGGTGGGCAGATCAGGTGTCGGAGAAGATGGGCACATGCAACAAGGCTGACGGCTCGGGGTCCGTGGTCTTGCGGAACAGCACCACCCTGGTGATGCACATGAAGGTCTACGATGAGAGCATCCAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010830:ENSBTAT00000017556:33
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(13.2=9.8)
A:
NA
C2:
NO
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:
TCGACTTCCCTGAGAGCAAAC
R:
TTCATGTGCATCACCAGGGTG
Band lengths:
256-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]