BtaINT0086783 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010830 | LRP1
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr5:56625132-56625644:-
Coord C1 exon
chr5:56625516-56625644
Coord A exon
chr5:56625396-56625515
Coord C2 exon
chr5:56625132-56625395
Length
120 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
CTTGTCTCCTGTGTCTCCAGAGC
3' ss Score
9.83
Exon sequences
Seq C1 exon
ACTTCGACGAGTGCTCGGTGTATGGCACCTGCAGCCAGCTGTGCACCAACACAGATGGTTCCTTCACGTGCGGCTGTGTGGAAGGGTACCTGCTGCAGCCAGACAACCGCTCCTGCAAGGCCAAGAATG
Seq A exon
GTAGGTGGGCTTACCTGCGACCGTACAGCTAGGCGCCCTCGGTGTCGTTCCCTGATGGGGAGAGGCCAGAGCGCTGCCAGGGCCGCTTGCTGCCCTAACCCTTGTCTCCTGTGTCTCCAG
Seq C2 exon
AGCCGGTTGACCGGCCCCCTGTGCTGCTGATTGCCAACTCGCAGAACATCCTGGCCACGTACCTGAGTGGGGCCCAGGTTTCCACCATCACACCCACCAGCACACGGCAGACCACAGCCATGGACTTCAGCTACGCCAACGAGACGGTGTGCTGGGTGCATGTTGGCGACAGCGCTGCCCAGACACAGCTCAAGTGCGCCCGCATGCCCGGCCTGAAGGGCTTCGTGGATGAGTACACCATCAACATCTCCCTCAGCCTGCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010830:ENSBTAT00000017556:5
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:
PF146701=FXa_inhibition=WD(100=79.5)
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:
GCTCCTGCAAGGCCAAGAAT
R:
TGTACTCATCCACGAAGCCCT
Band lengths:
258-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]