GgaINT0071398 @ galGal4
Intron Retention
Gene
ENSGALG00000023172 | LRP5L
Description
low density lipoprotein receptor-related protein 5-like [Source:HGNC Symbol;Acc:HGNC:25323]
Coordinates
chr4:48993403-48994013:+
Coord C1 exon
chr4:48993403-48993567
Coord A exon
chr4:48993568-48993812
Coord C2 exon
chr4:48993813-48994013
Length
245 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
GAGCCTGCCCTTCCCCGCAGGTG
3' ss Score
11.68
Exon sequences
Seq C1 exon
GTGCTGCAGCTGAGATGGGTCCAGAGCCCTTTTGCAGCGGCTGTGTGTGAGGGGCAGCTCTACTGGTCGGAGAGGAAGGCATGGTCGGTGCAGCAGGTGGACAAGGCCACAGGCAAGAATAGGACCGTGCTGCTCAAGCGACATGGGCAGCCCCATGGCCTTCAG
Seq A exon
GTACCTATGTGGGGAGCCCAGATTCCTGCTGCACTCACTGCTGGGGCTCCCAGCCTGCCATAGCCCGGGTGGCATCGAGAGCTGCACCTACTCCACAAATGGTCCCCTGGTCTCTGTGGTCCCTGTGGTTGAGAATCACCCATTCTCTTAAGGAGCATCTCCATACTGGGCTGATAGCCTGGCATGGCACTGGTTGTGCTCAGCTCTTCTGCTAGACGCTGGACTGAGCCTGCCCTTCCCCGCAG
Seq C2 exon
GTGATGCACCCAGCCCTGCGCCTGGCAGCTCCCAACCCATGCACAGCCCGCGGCTGCTCCCACCTGTGCCTGCTGAGCAGCCGGCATGCTGGGCAGTGCCGATGCCCCATTGGGATGACTCTGGCTGACGATGAGACCACCTGCCTGCCCCTCCACACTTCAGCCTTCGCCCTCCTCGTGTCACCAGCAGCCGTGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023172:ENSGALT00000037928:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.020
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=71.4)
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:
AGCTGAGATGGGTCCAGAGC
R:
TCTCATCGTCAGCCAGAGTCA
Band lengths:
294-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]