GgaINT0071397 @ galGal4
Intron Retention
Gene
ENSGALG00000023172 | LRP5L
Description
low density lipoprotein receptor-related protein 5-like [Source:HGNC Symbol;Acc:HGNC:25323]
Coordinates
chr4:48993129-48993567:+
Coord C1 exon
chr4:48993129-48993330
Coord A exon
chr4:48993331-48993402
Coord C2 exon
chr4:48993403-48993567
Length
72 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGC
5' ss Score
6.3
3' ss Seq
ATTCACAGCCTCTCCTCCAGGTG
3' ss Score
5.74
Exon sequences
Seq C1 exon
GATGCTATACTGGTCAGAGGTGGGGAACCAGCCACGGCTGATGGAGGCCACCATGGATGGAAGGCGGCAGCGTGTGCTGCTGGCGCAGGGCCTGGGCTGGCCCACAGCACTAGCCCTTGACCTCCCCACCTCGAGGCTCTTCTGGCTGGATGAAAAGCTGGGCAGTGTTGGTTCCACACATCTGGATGGCACCGATGTAAAG
Seq A exon
GTGTGCAGCTGGGGGTTCTGGTTATGGGGCTGGGTTGGGTGCTGGTATTGATATTCACAGCCTCTCCTCCAG
Seq C2 exon
GTGCTGCAGCTGAGATGGGTCCAGAGCCCTTTTGCAGCGGCTGTGTGTGAGGGGCAGCTCTACTGGTCGGAGAGGAAGGCATGGTCGGTGCAGCAGGTGGACAAGGCCACAGGCAAGAATAGGACCGTGCTGCTCAAGCGACATGGGCAGCCCCATGGCCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023172:ENSGALT00000037928:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=61.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATGAAAAGCTGGGCAGTG
R:
CGGTCCTATTCTTGCCTGTGG
Band lengths:
183-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]