GgaINT0138766 @ galGal3
Intron Retention
Gene
ENSGALG00000006598 | SORL1
Description
NA
Coordinates
chr24:3539864-3540452:-
Coord C1 exon
chr24:3540297-3540452
Coord A exon
chr24:3540014-3540296
Coord C2 exon
chr24:3539864-3540013
Length
283 bp
Sequences
Splice sites
5' ss Seq
CCCGTAAGC
5' ss Score
4.37
3' ss Seq
CTCGCTTCTCCCACCCGCAGACC
3' ss Score
12.28
Exon sequences
Seq C1 exon
GCTCCCCACTCCTTCCCATCACCACCGCCGTCCCTCCCACCTGCCTCCCCAACCATTTTCGGTGCGGCAGCGGCGCCTGCATCACCAACAGCTGGGTGTGCGATGGGTACCGCGACTGCGCCGACGGCTCCGACGAGGACGCCTGTCCCACCTCCC
Seq A exon
GTAAGCATCCTCACCCCACTCCTCCTCTATCACGTCTGGGGACACGGAGGGGAGGGAGCTGGGGTGGCTTTTCAGCTCACACCTGCGCTGAAGGTACCAGGAGGCTGCAGAGCAGTTGCTTTCCCAGCCCTCTGCAGTCAGCGGTGAGGATGGTTCAGGCATCCCAGCTAGCTGCTAGATGGGAGGACATTGCCATCTAGTGGAGCCGGGACCAACGCCATCTAGTGAAGTTGGGACCGCTGTCGGTGCTGCTGGGTTCTCTCCTCGCTTCTCCCACCCGCAG
Seq C2 exon
ACCCCAATGTGACCTCCAGCCCCCCAGCGCCGCGCGGCCGCTGCAGCAGGACCGAGTTCGAATGCCAGCAGCTGCACAAATGCATCCCCAACTGGAAGCGCTGCGACGGCCGGAGGGACTGCCAGGATGGCACCGACGAGAGGAGCTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006598:ENSGALT00000010639:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.118
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=69.8)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=74.5)
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:
CTCCCCACTCCTTCCCATCAC
R:
CTCCTCTCGTCGGTGCCATC
Band lengths:
300-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]