BtaINT0086772 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010830 | LRP1
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr5:56625516-56627547:-
Coord C1 exon
chr5:56627428-56627547
Coord A exon
chr5:56625645-56627427
Coord C2 exon
chr5:56625516-56625644
Length
1783 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CTCTCGCCTTTTCCCGCCAGACT
3' ss Score
8.36
Exon sequences
Seq C1 exon
AGCAACGAGGACAGTGTTCCCATCTGGGCTGCCAGCACCACTGTGTCCCCACACTCAACGGGCCCACCTGCTACTGCAACAACAGCTTTCAGCTACAGGCAGACGGCAAGACCTGCAAAG
Seq A exon
GTAAGTGTGCACACGTGCACATACTGGGGTTCAGGATGTGCTGGGGGGTGCTGGGTGGGCAGTGGGCTAGGTTGGGGAGGAGAAAGCTTGAAAGGTGCAAGACAGGATGCGGGTCTACAACACACCTTACGGCCTCAGGGCATGGCTGTGGGCCCTAAACATTTGCTTCTGCCAGACTTTTCAAAACTCATCTTAAAAATTATATAGGTCAAGGTCAAGGACTTCCCTGGTGGTCTAGTGGTTAAGATGCACTTCCAATGCAGGGAGCACGGGTTTGATCCCTGATAGGGGACCTGAGATTCCCCCATGCCATACAGCGCAGCCAAAAAAAAATAATAATAATAATAAATAAATATATATATAGGTCATATGTGAGTTTTCTTGTTTAAAAAGGTTTAAAGCATTACAGACAAAACCAAAGTCCCCTTTAACAAATCCTCTTTAGTTACGGTCCCTCCCCCATCTCTCTGGAAATCAGCTCTTTTTAACAGTTTGCTACTTCTCTGTCCAGGCCTTTTTCTATCCAGGTATACATGTATTCACAGAGAATCTAATTGAAAGTACTGTTTATGTGCATGGGATCTTGTTTACATAAATATCATACTGTATATGGCTTCCCAGGTGGCCTAGTAGTAAAGAACCTGCCTGCCAATGCTGGAGACATTAAGAGACATGGGTTTGATCTCTGGGTCAGGAAGATCCCCTAGAGGAGGGCATGGCAACCCACTCCAGTTTTCTTGCCTGGAGAATCCCATGGACAGAGGAGCCTGGCGGGCTACTGTCCACGGGGTGGCAAAGAGTCAGCCATGACGGAAGCGACTTAGCACGCACGCACATACTGTACATATTTGTTTTTCAATTTTTTCACCCAGTATGTTCTAGAGATTTTTCTGTGTTAATGTGTAGAGATCTACCCCATTCTTTTTAAAACCACGGTGATGTATGACTATTACCACAGTTCACTTGGCCATCTCCCTTTGGATGAGTAAGATGTTCCCAGTTTCTCTCTGTTACAAACAATGCAAACTCTTCTGTTTTAAATGTACCTCCTTTTGGTCTTGGCACAAATGTAGCCTTCTCAGTGACAAATGTAGCCTTCTCAGTGAGACTCCTTATAGCCCTAAAACCACATCCCCACTGCCTGCATTCTCTGTCCCCTTTCTCTGCTTAGTATTTTTTCATAGCACCAGCTACTTCCCATCGCACTAACTCCTCTAACATGTCATTTACCTTTTAATTTTATTTATTATTATAATAACAACATTTTATTTATTATCAGAATTTAAGTTCTTTAAAGAATATTTATTTATTCATTTATTTGGCTGCATTGGGTCTCAGTTGTGGGACACGGACTTAGTTGCCCCATGGCTTGGGGGATCTTAGTTCCCCGACCAGGGATTGAACCCACGTCCCCTGCATTGCAAAGCAGATTCTTAACCACTGGACCACCAGGGAAGTCCCGGAATTTAAGTTTTAAAAGGGCAGCAGTTTGAATCTATTTTTTTGCTGATGTGTCCCCCGAGCCTAAGACTGTACCTGGCACATTGCAGAAATCTTTTCTGAATGAATGGATGATAAGCACGTGTATAGATACATCTCTAGAGTGGATCCCAGGTCTGGGGCTAGGTGGTAACGTTTCCACATTTCTTGTTGCAGTAGATTCTGTCAAACTGTTCTCCGAAGTAGCTGTAGGGATGGACACACCCCAGGTGTTGTCTGAGGGCACTCCCTTCCCTGCCCTCGGTAGGCTGGAAATGACCACGCTCTCGCCTTTTCCCGCCAG
Seq C2 exon
ACTTCGACGAGTGCTCGGTGTATGGCACCTGCAGCCAGCTGTGCACCAACACAGATGGTTCCTTCACGTGCGGCTGTGTGGAAGGGTACCTGCTGCAGCCAGACAACCGCTCCTGCAAGGCCAAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010830:ENSBTAT00000017556:4
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=PD(92.7=92.7)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=79.5)
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:
CAACGAGGACAGTGTTCCCAT
R:
ATTCTTGGCCTTGCAGGAGC
Band lengths:
246-2029
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]