GgaINT1016955 @ galGal4
Intron Retention
Gene
ENSGALG00000023172 | LRP5L
Description
low density lipoprotein receptor-related protein 5-like [Source:HGNC Symbol;Acc:HGNC:25323]
Coordinates
chr4:48989935-48990452:+
Coord C1 exon
chr4:48989935-48990107
Coord A exon
chr4:48990108-48990236
Coord C2 exon
chr4:48990237-48990452
Length
129 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
ATGACCCATTTTCTCCCCAGGGG
3' ss Score
10.47
Exon sequences
Seq C1 exon
GCCCAGCCCTCCACACCCCCCAACCCGGTTCTCCCATCTCTCCTGTCCTCGCACACACATGCCCTGCCGTGACGGCGCTGAGTGCGTGGCCCAGGAGTACGTGTGTGATGGAGAGAAGGACTGTGCGGATGGCTCTGACGAGGATGAGTGTGCCCAGCTCTGTGACGCCCCAG
Seq A exon
GTAGGAGACTGCCTTTAGTGGGTGATCATGTGCCAGGGTTTCTGGCTGATTCCCAGTGGGGCTGATGGGATGAAGCCCTGAGAAGTTCCATAACTGCAGAAGACTGAGAATGACCCATTTTCTCCCCAG
Seq C2 exon
GGGCCTTCCACTGTGCTAGCAGCACCACGTGTGTTGAGGCCAATGAGCGCTGCGATGGGGTGCCACAGTGTCCCGATGCCTCGGACGAGATGGGCTGCTGGAGCCCCACACAGGACTGTGCCCTGCGCTGCGACGCTGCCACCCGCTGCGTCCCCGAGAGCTGGCTGTGTGATGGCCATGCTGACTGCCTGGATCACACCGACGAGCAGGGATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023172:ENSGALT00000037928:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=64.4),PF0005713=Ldl_recept_a=PU(15.4=10.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(82.1=43.8),PF0005713=Ldl_recept_a=WD(100=50.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGCTCTGACGAGGATGAGT
R:
GTGTGATCCAGGCAGTCAGC
Band lengths:
244-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]