BtaINT0086922 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004555 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:26953480-26954439:+
Coord C1 exon
chr2:26953480-26953593
Coord A exon
chr2:26953594-26954319
Coord C2 exon
chr2:26954320-26954439
Length
726 bp
Sequences
Splice sites
5' ss Seq
GCCGTACGG
5' ss Score
3.38
3' ss Seq
GTCATTTTATTTTCTTCCAGCTG
3' ss Score
9.62
Exon sequences
Seq C1 exon
CTCACCGGTGCACGCGCACTGAGTTTCAGTGTGGCAGTGGGCAGTGCATTCCTAGAACCTACGTCTGTGACCATGAAATTGACTGTGAAGATGGCAGTGATGAACATTCTTGCC
Seq A exon
GTACGGTGACTTCCTCATTTTGGGTCATGCTCTTAGGAATGCTCTTGTCTTTGCATTTCCGCCCCCTACTGACGTATTATTCTTTTCAAATAAAAGTCACCTCTGGCAGAGGAAGCCAGAATATCATTTAGGGCCCATGGCATGAGCCTCAGCAGTGTTGCTGAACTTAGACTTCTTTACCTTCCAGAGATCTGTGTAGAGTTGAAGTGGTGCTCATGGACAGTTTGCATTCTTTTCTTAGGCCACACAGATACAGGGTATATTGTATTACTGGATTTCCTTTCTGGCACCTGGGCTTATTTCAGTGCTAAATTGAGAGGAATGTGATATCATGGAATGAGTTGCTCAGAATCATTGAGTCCTAGAGAGCAGTTACTGTGCTTGTGGTCAAGTGAGAGAATGTTGGCCATTGGCATTTCTGTAGCATCTTTGTCAGTCTGTATTCTTTGCTCTGTGTCAACCTATAGCTATCTTGTGTTTCATCTTGATGCACTTGATTTTCATGTCCTGAACCCAAAGCTACTGTTTTCTTCTCCCCTTCTCTCTTCTTCTCTTTCTCTCTCTCTCTTTTTTTTTTTGTTCATTTTTGTCAAGATGGTTAAGGGACTAAATGGGCGTAGAAATTTCAGTTTCTTGGAGCTCAGTTTAGGTGGCGGGGTGAGCACTTTGATTTCTTTCCAAAGGTTTGTATCTTTGGAGTGTAGCTGTCATTTTATTTTCTTCCAG
Seq C2 exon
CTGCTTATCGGACCTGCAAAGGCAACGAATTCACTTGCCCTAACGGCGTCTGCATTGCACAGAGTTGGGTTTGTGATGGAGAAAGTGACTGTGTAGATAACGCTGATGAAGATGGATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004555:ENSBTAT00000005988:5
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:
PF0005713=Ldl_recept_a=WD(100=94.9)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=90.2)
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:
GCACGCGCACTGAGTTTCA
R:
CGCATCCATCTTCATCAGCGT
Band lengths:
225-951
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]