GgaINT1016961 @ galGal4
Intron Retention
Gene
ENSGALG00000023172 | LRP5L
Description
low density lipoprotein receptor-related protein 5-like [Source:HGNC Symbol;Acc:HGNC:25323]
Coordinates
chr4:48994091-48994868:+
Coord C1 exon
chr4:48994091-48994634
Coord A exon
chr4:48994635-48994739
Coord C2 exon
chr4:48994740-48994868
Length
105 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CCCTGTGTCCGTGTCTGCAGAGC
3' ss Score
10.17
Exon sequences
Seq C1 exon
GTCTACCTGAAGGACATGCCACCAACAGCTGGAGCCCAAGGCCTCCCCCAACACCGGGCCCTGCCTCTGGCCAAGGTGGGACGCTTGACAGCTGTCGACTACATGGTGAAGGACAAAAGCCTGTACTTCGCTGAGGTGGGGAGCGACTCCATTGGGCTGCTGCGCCTGAAGGACTCGGGCCGGCTCTCCTGGAAGAAGGTTGTTGCTGTGGAGGGCATGGTGGTGTCCCTGGCCCTCGACTGGCTGAGCGGAAACCTGTACTGGATCGAAGGGCAGCCTACCAGCATCCATGTAGCCACGGCTGGGGGGCGGTGGGCCCTGGTGCTGCTCAGCGAGGGGCTGCAGGGTGCTGCCTGGCTGGCCCTCTGCCCTCGCGCCTCCACCATGTGCTTCATCACAGCAGCAGGCAGCCGCAGGCCTGGTGCTGCAGTGGAGTGCGCAGCCATGGACGGCAGTGGCCGCAGAGTGGTGTGGAGCAGAGCCCGCTCTCCTGCCGGCCTCACTTTTGGGGGTGCCAGCACCCGGCTCTACTGGGCAGACCAGG
Seq A exon
GTGAGTGTGGGGCAGCATGGAGGGCAGTGGGGCTCAACCCAGCATGTCCACGAGGGGACGCTTTCCATGTCCCACACCTGAAACCCCCTGTGTCCGTGTCTGCAG
Seq C2 exon
AGCGCGGTGCGATTGGCAGTGTAGAGCTGGATGGTTCCCACTTCAGGCTGGTGCGGGAGGGACTGCACGGTCTCAGGCTTTTTGCCATCGGAGATGGCTTTCTGCTCTGGTCAACAACCACAACCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023172:ENSGALT00000037928:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
TGTGCTTCATCACAGCAGCAG
R:
AAAAAGCCTGAGACCGTGCAG
Band lengths:
242-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]