BtaINT0086881 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004555 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:26965101-26966487:+
Coord C1 exon
chr2:26965101-26965270
Coord A exon
chr2:26965271-26966263
Coord C2 exon
chr2:26966264-26966487
Length
993 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
AATTTTGGTTTTTCTTTCAGGTT
3' ss Score
10.86
Exon sequences
Seq C1 exon
TTGGTGAGGCCTTTGTGATCTTCTCCAATGGTCGGAATTTGCTAAAGGGTAGCATTCGTGGAAACAACTTTCAGATTCTGGCAGAGTCTCAAAATCGTGGATTGGCTGTGGGTGTGGATTTTCACTATCGGCTACGCAGAGTCTTTTGGACTGACATTGTGCAAAAGAAG
Seq A exon
GTAAATAGAAATTTCTGGAGTATAGCTTGGGACCTGATAGAACTCCAAGCACAAAGTGTTGATAGTTTTTCATTTTGGGAGGAGTAGGGAGGGAAGTTCCTTTGTTTTCTAACAAAAAAGGCCCTTGAGATATTTTATGTTAATCAGCACCTTTTACAGCTATACTATTACATGTGACCTATTAAACAAAGCAGTCTATTATATGGATTAGCCTTGAGCAACTTTTAATTTTATTCGAAATGGAGTCCAAAAGCCTAATTAAAAGAAATAGTAGACATTCTTTCAAAACTGGATAGATATTTGGTAGTAATTTTTGAAACTTGATCATTTAAAATGTAAAAAGTATTCTGCTTTCCTGGATGATAAAAATCAGATTTTACCTGCATCTTCTAAATGGAACTGTAATTGAGCATTGGGTAACAAATATTGACAGTATTTTGTTTAACAGCCAAAATTTCATTATGCTCTCTTATTTGGAAAATGTGATGGATCTGATTTCAACTTTGAGTAATGCAATGGAGATTTTTAAAACATAAATTTTAGAGATTCTTAAAGAGTTAAAGATATTTTATTTCTTCTTACATTTCCTTGTACTATTAATAAAATTTTAATTCAATTAACAGATAAATTCCATAAATTTTCCAAAAATTGAGACTTTGGATTATTAGTAGGTCTGATTTAATAACAGCTATAAATAAAAACAAACCATTTCCACCTGTGCCACCAAAAATCCACATTGAATTAAACTTTCACTAACTACTGAAGAATTAGAGATGCAGGCTTTTTTTTAAAAACTCAACTTTATATATGCCTCACATGATTTTAACAAAATGCCCCACCACCTCCTGTTAACCCATGATGTAAAATTAAATGTCTCTAGTGATTTTTTTTTAGTTCAAATGACTGATTTGTACACCAAAGATAAGTCCTGGAAAAAAAACTCTCCCAACTAGTTATGCTTAAGAGGTTTAATAATTTTGGTTTTTCTTTCAG
Seq C2 exon
GTTTTTTCAGTTGACATATCTGGTTCACGTATCAGAGAAGTTCTCGGTGTTTCTATTGAAGACCCAGAGAATCTGGCTGTGGATTGGGTAAATAATAAACTTTATATTGTGGAGACCAGAGTCAACTGCATAGATGTGGTAGATTTGGATGGAAGCCATCGGATTACCCTTATAAGTGAATATTTGGGACATCCTAGAGGAATTGCTGTGGACCCAACTGTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004555:ENSBTAT00000005988:10
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=PU(26.8=19.3)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(68.3=37.3),PF0005812=Ldl_recept_b=WD(100=54.7),PF0005812=Ldl_recept_b=PU(0.1=0.0)
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:
AGGGTAGCATTCGTGGAAACA
R:
GTTGGGTCCACAGCAATTCCT
Band lengths:
343-1336
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]