BtaINT0086787 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010830 | LRP1
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr5:56578352-56578859:-
Coord C1 exon
chr5:56578731-56578859
Coord A exon
chr5:56578475-56578730
Coord C2 exon
chr5:56578352-56578474
Length
256 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
GTGTCTGCCTCTGTCCACAGTGT
3' ss Score
11.52
Exon sequences
Seq C1 exon
AAGGCAAAACATGCGGCCCCGGCTCCTTCTCCTGCCCTGGCACCCACGTGTGCGTCCCCGAGCGCTGGCTCTGTGACGGGGACAAGGACTGTGCTGACGGCGCTGACGAGAGCGTTGCGGCAGGCTGCT
Seq A exon
GTGAGTGGCGGGGGCCCCAAGGAGTGGGGCGGACGGTGCATGGCCGTGGGCCCACTTTGCAGAAGGGGAAACCGAGGTCATGGAGAGGAAGGGGTCACTCAGGCAGCAGTGGCAGAGCTCTGTCTGCAGTCCAGGTGCCCAGATGCCCTGTCCAGTGCTCTGCCCACCCTGCTGCTCACACCACAGGCATGTCGGGGGGTGACACTCAGCAGCAGATGGGCGGGCGCTGAGGGGCTGTGTCTGCCTCTGTCCACAG
Seq C2 exon
TGTACAACAGCACCTGTGATGACCGCGAGTTCATGTGTCAGAACCGCCAGTGCATCCCCAAGCACTTCATGTGCGACCACGACCGTGACTGCGCTGACGGCTCCGATGAGTCCCCGGAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010830:ENSBTAT00000017556:53
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=93.2)
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:
CAAAACATGCGGCCCCGG
R:
ACACTCCGGGGACTCATCG
Band lengths:
247-503
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]