GgaINT1016948 @ galGal4
Intron Retention
Gene
ENSGALG00000023172 | LRP5L
Description
low density lipoprotein receptor-related protein 5-like [Source:HGNC Symbol;Acc:HGNC:25323]
Coordinates
chr4:48987146-48987663:+
Coord C1 exon
chr4:48987146-48987314
Coord A exon
chr4:48987315-48987437
Coord C2 exon
chr4:48987438-48987663
Length
123 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
ATCCTTGGCCTGTCTCCTAGTCC
3' ss Score
6.07
Exon sequences
Seq C1 exon
GTCCCTCTACTGGGTCAACCGTGGGCTGAGAGGCCGGACAGTCATTGCTGCAGCTGGCATGGATGGCTCAAACCGTCAGGAGCTCACAGTGGTGTCCATGGAAGAGCCTGTAGGGCTCAGCCTGGACTACGTGGCTGGCAGACTATACTGGATCAGCGAATACAAGGAG
Seq A exon
GTAGGGATGGGGAGTAGCAGCACTCAGCTCCACCAGGTGCTTTGCCGGGCCCTGTAGCCAAGGCTCACTGTGCTGGGGCACTGGGATGCCATGTGGCTACTACATCCTTGGCCTGTCTCCTAG
Seq C2 exon
TCCATAGAGACGCTGCGGGTGGATGGCAGTGGACGCCACTCCTTCCCTGCTGTCCTGCGGAGCCACACAGAGCCTCTGGGCCTGGCTGTGTTTGAGAGCCGCTTCTTCTGGGCTGATGGCACTGAGCTGGTGTCAGCCAGCCAGGCATCTCCACAGGAGCATGCTGTACTGCTCCGGGCCCCTGTCTCAGCCTTCACTGTGTTGCACGCACTGCAGCAGCCACCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023172:ENSGALT00000037928:10
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:
NO
A:
NA
C2:
NO
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATGGAAGAGCCTGTAGGG
R:
CAGTACAGCATGCTCCTGTGG
Band lengths:
246-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]