DreINT0013742 @ danRer10
Intron Retention
Gene
ENSDARG00000097827 | LRP1 (2 of 2)
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr11:1675229-1677279:+
Coord C1 exon
chr11:1675229-1675357
Coord A exon
chr11:1675358-1677018
Coord C2 exon
chr11:1677019-1677279
Length
1661 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
TTGTGTGCGTGTGTGTGTAGTGC
3' ss Score
6.08
Exon sequences
Seq C1 exon
ATTTTGACGAGTGTACGGTGTACGGCACCTGCAGTCAGACGTGCACCAACACAGACGGCTCCTACAGCTGCTCCTGTGTGGAAGGTTATCTCGTCCAGCCAGACAACAGATCCTGCAAGGCCAAGAACG
Seq A exon
GTGAGACAAACAGGCCAAGATAAGATTCAATAAAACAAACCTTCTCCATTTCCCTGACACACATCAGCAGCTTTATTCATCATGGCTGACTGAACCGCCAGCCGCTTTTTTGTCTTGTTTCTAGTCCAAATAATTAAAAACTCTCAAATCAAGAAGCCTTTTAAGATGACTGTGTAAATGACACTTAATGACTGTTGTCATAAGCGGGAATACAATGTCATTCCTATTCATGATGTCACATCATGGTTATAAAGGTGTCATAACAGTCAGTCAGGTAAAGTGTTACCAATAAAGCTCTACTGGGAATGATGTGCAAAAAGAAAGCCCCACCCCCTACTCAATATTAAGTTTCAGTTGGAAGTGCGAAATGAAAGCCACGCCCCCTAATAAATATTCAGTTTCAATTCAAAGTACATCAACATACTGAAATAAGAGTCTCTGCAACTTCTGGTTCATGCAAATGAATGAAGCCCCACCCCCTACTTAATATTCCGTTTCAGTTGGAAGCACAAAAAGAAAGCACCGCCTCTTACCCAATATTCCATTTTAGTTGGAAGTGTAAAAAGAAAGCCCCGCCCCCTACTCAGTGTTCAGTTTCATTTGGAAGCACAAAAAGAAAGCCTCGCCCCTACTGAATATTTATTTTAAGTTGGGAGAGCAAAAAGAAAGCCCCGCACCCTACTCATTATTCAGTTTCAGTTTGAAGTGCAAGTAGAAAGCCCCACCCCCTAGTCAATATTTAGTTTCAGTTAAAAGTGCAAAAAGAAAGCCCCGCCCCCAACTCAATATTCTGTGTCAGTTGAAAGCGCAAAAAGAAAGCCCCGCCTCCTATTCTATATTCCGTGTCAGTTGAAAGTGCAAAAAGAAAGCCCCACCCCACCCCCAGTCAATATTTAGTTTCAGTTAGAAGTGCAAAAAGAAAGCCCCGCCCCTACTCAATATTCCGTTTTAGTTGAAAGCGCAAAAAGAAAGCCCCGCCCCCTACTCATTATTTAGTTTCATAAAGAAGTGCAAAAAGAAAGCCCCGCCCCCTACTCTATATTCAGTTTCAGTTGGAAGGGAAAAAAGAAAGCCCCGCCCCCTACTTAATATTCTGTTTCAGTTGGAAGTGCAAAAAGAAAGTCCCACCCCCTACTCAATATTCTGTTCCAGTTGTAAATGCAAAAAGCCCCACCCCCTACTCAATATTCAGTTTCAGTTGGAAGTGCAAAAAGAAAGCCCCGCCCCTTACTCAAAATTCCATTTCAGTTGGAATCGCAAAAAGAAAGCTCCGCCTCCTAGTTAATATTTAGTTTCAGTTGGAAGCGCAAAAAGAAACCCCACCCCCTACTTAATATTCTGTTTCAGTTGAAAGTGCAAAAAGAAAGCCCCGCCCCCTACTTAGTATTTCGTTTCAGTTGGAAGTGCAAAAGGAAAACCCCGCCCCTTAATCAAAATTCTATTTCAGTTGAAAGCACAAAAAGAAAGCCCGCCCCCTACTTAATAATCCGTTGCAGTTAGAAGCTCAAAAAGAAAACCCTGCTCACTACTCAATATTCCTTTTTAGGTGGAAGTGCAAAAAAAAGCCCCGCCCATACTCAATATTCCATTTTAGTTAAAATTGCAGAAGTTCTGAGCTCTAACTGATTTGTTTGTGTATGTTTGTGTGCGTGTGTGTGTAG
Seq C2 exon
TGCCTGTGGATCGTCTGCCCGTCTTACTGATCGCCAACTCCCAGAACATCCAGATCACGTCTCTGAGCGGCTCCAGCAGCCCGTCGCTCCACATCACCACAAAGCAGACCACGGCCATGGACTTCCTGTACACGCAGGAAACCATCTGCTGGATCAACGTGGGCGACTCTCCGGCCGGAACGCATCTGAAGTGCGCCAAGATCGCAGGACTCAAGAGCTTCAGCGAGGAGAGGACCATCAACATCTCGCTCAGCCTGCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000097827:ENSDART00000154967:4
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:
PF126622=cEGF=PD(12.5=6.8),PF146701=FXa_inhibition=WD(100=79.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGACGTGCACCAACACAGAC
R:
GCTGAGCGAGATGTTGATGGT
Band lengths:
348-2009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]