BtaINT0086788 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010830 | LRP1
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr5:56578131-56578474:-
Coord C1 exon
chr5:56578352-56578474
Coord A exon
chr5:56578272-56578351
Coord C2 exon
chr5:56578131-56578271
Length
80 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
CCTGCCCCCTCCAACCGCAGAGT
3' ss Score
10.53
Exon sequences
Seq C1 exon
TGTACAACAGCACCTGTGATGACCGCGAGTTCATGTGTCAGAACCGCCAGTGCATCCCCAAGCACTTCATGTGCGACCACGACCGTGACTGCGCTGACGGCTCCGATGAGTCCCCGGAGTGTG
Seq A exon
GTGAGCCCGGGGCCGCGGCGGGAGGGGGCCCTGCTCTCAGTGCACAGGCCGCCAGCCTCACCTGCCCCCTCCAACCGCAG
Seq C2 exon
AGTACCCAACCTGCGGCCCCAATGAGTTCCGCTGCGCCAATGGGCGCTGCCTGAGCTCCCGCCAGTGGGAGTGCGACGGTGAAAACGACTGCCACGACCAGAGCGACGAGGCCCCCAAGAACCCGCACTGCACCAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010830:ENSBTAT00000017556:54
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=90.5)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=87.5)
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:
TGCATCCCCAAGCACTTCATG
R:
CTGGTCGTGGCAGTCGTTTTC
Band lengths:
174-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]