GgaINT0138763 @ galGal3
Intron Retention
Gene
ENSGALG00000006598 | SORL1
Description
NA
Coordinates
chr24:3541494-3541984:-
Coord C1 exon
chr24:3541850-3541984
Coord A exon
chr24:3541626-3541849
Coord C2 exon
chr24:3541494-3541625
Length
224 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CCCCCACACCTCCCCTGCAGCCC
3' ss Score
9.45
Exon sequences
Seq C1 exon
AAATTCCCCTGTGCACCCGTTACATGGACTTCGTCTGCAAGAACCGGCAGCAGTGCTTGTCCCACTCCATGGTGTGTGATGGTGACATCCAGTGTGAGGATGGCTCCGATGAAGACGCCAACTACGCGGGATGCG
Seq A exon
GTGAGCGTGGTGCTGTGCATCTCAAGGCACTTGGTATAGGGAGGGCTGGAGAGAGTGGAGACCACAGGCGTGGGGAGGGTGCCACAAAGCTGCCATGTCTCCTAAGCAATGGTCCTGGACTATAATGCTGTGCTTTCAAAAGTCCATGACAGCCTCCTGCTCCATGTGGGGCTCCCCTCCATCCCCACACTGACCCTTACTTTCCCCCCACACCTCCCCTGCAG
Seq C2 exon
CCCAGGAGCCCGAGTTCCACCGCACCTGTGACCAGTTCAGCTTCCAGTGCGCAAACGGGGTGTGCATCAGCCTGGTGTGGAAGTGTGATGGCATGGATGACTGCGGTGATTACTCAGATGAAGCCAGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006598:ENSGALT00000010639:27
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:
PF0005713=Ldl_recept_a=WD(100=91.3)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=82.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTCCCCTGTGCACCCGTTA
R:
CACAGCTGGCTTCATCTGAGT
Band lengths:
266-490
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]