DreINT0090870 @ danRer10
Intron Retention
Gene
ENSDARG00000006921 | lrp5
Description
low density lipoprotein receptor-related protein 5 [Source:ZFIN;Acc:ZDB-GENE-050518-2]
Coordinates
chr25:10552397-10552900:-
Coord C1 exon
chr25:10552673-10552900
Coord A exon
chr25:10552540-10552672
Coord C2 exon
chr25:10552397-10552539
Length
133 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGG
5' ss Score
3.93
3' ss Seq
AGTCTATCTCCGTGTCACAGGGA
3' ss Score
6.04
Exon sequences
Seq C1 exon
ACTTCCCACCACCACCCAACGATCTTCCACGTCACACCAGCACCATCGGCCCAGTCATCGGCATCATCCTCTCTGTCTTCGTAATGGGAGGCATGTGTTTCGTGTGCCAGAGAGTCGTGTGTCGTCATTACAAAGGCCCCAATGGAGGATTTCCACACGAGTACATCAGTGGGACGCCCCACGTGCCACTCAACTTCATCGCACCCACAAACTCGCAGCATGGTAAAG
Seq A exon
GTCTGGCATTTCCAGTAATTCTCAAGTGTTTGGATGTTTGAAGCCTTTTCTAACCTTCCTAAATAAAAGTATTCCAGGGCCTTAGCATCTGTCTTTGAGTTCAGTGTGTGATGAGTCTATCTCCGTGTCACAG
Seq C2 exon
GGATATCATGTGGGAAGTCAATGATGAGCTCAGTGAGTCTGATGGGCAGCAGTAGCAGCGGAGCTCCTCTCTATGACCGAAACCATGTGACAGGAGCTTCATCCAGCAGCTCTTCCAGCACCAAAGGAGCATTTTACCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006921:ENSDART00000121724:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.104 A=NA C2=0.438
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGTGTTTCGTGTGCCAGAGAG
R:
GCTGGATGAAGCTCCTGTCAC
Band lengths:
242-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]