DreINT0013741 @ danRer10
Intron Retention
Gene
ENSDARG00000097827 | LRP1 (2 of 2)
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr11:1674335-1675357:+
Coord C1 exon
chr11:1674335-1674454
Coord A exon
chr11:1674455-1675228
Coord C2 exon
chr11:1675229-1675357
Length
774 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
GTATGTGTGCGTGTGTTCAGATT
3' ss Score
7.78
Exon sequences
Seq C1 exon
AACTGGCGCACAACTGTACTCTCTCCGGCTGTCAGGATGAGTGTGGCGTGACGCGTGGCGGACCCGTCTGCTTCTGCAAGAGCGGATACGAGATCAGCCAAGATGGAAAGACCTGCAAAG
Seq A exon
GTCAGCAGCACACAAACACACAGACACACACACACACACATACACATACACACACACACACATGTATGCATAAACACACACAAATACATGCATGCTTAAATACAAACACAGAAGCATGCATACGCACACACACACACATACACATTCATGCTTACATACACACACACACACACACACATACACAAACATGCATACACATACACACACATGCTTACATACACACATACATGCACGCACACACACAATTGCATACGCACACAGACATGCATGTATACGCATACATATGCACACACATACACATGCATACACACATACGCACAGACATACATGCGTGTATACACACACGTGCACACACACTAGATTGCGTACACATGCATGCGTACATACATGCACATATAGACACAACCATATACACACATACACACCCACAGATACACACACATGTACATGCACAAACACACACACATGCACATATTACACAAGCACATGCACACACATACATATATGCACACATTCATGCATACATACACATACACATGCCTACACCATACGCACGCACACAAAACACACACACACACACAAACGCACACACACACATGTATTGATGGATGCAATTGACTTTTAAATGTGTGCATTATGTAATAATCACTGAAAATTGTAATTAATTTAGTTGAAAAGCCTTAATTTGTTTAACAAGTTGAATCATTAATTTAAGTTTTCGTTCATTAACTGATTGATGTGTTTGTGTGTTTGTGTATGTGTGCGTGTGTTCAG
Seq C2 exon
ATTTTGACGAGTGTACGGTGTACGGCACCTGCAGTCAGACGTGCACCAACACAGACGGCTCCTACAGCTGCTCCTGTGTGGAAGGTTATCTCGTCCAGCCAGACAACAGATCCTGCAAGGCCAAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000097827:ENSDART00000154967:3
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=PU(83.3=48.8)
A:
NA
C2:
PF126622=cEGF=PD(12.5=6.8),PF146701=FXa_inhibition=WD(100=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGGCGCACAACTGTACTC
R:
GTTCTTGGCCTTGCAGGATCT
Band lengths:
248-1022
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]