GgaINT0044048 @ galGal3
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
NA
Coordinates
chr6:23681528-23681932:+
Coord C1 exon
chr6:23681528-23681660
Coord A exon
chr6:23681661-23681748
Coord C2 exon
chr6:23681749-23681932
Length
88 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTGACTGTTCCTCATGCCAGGAT
3' ss Score
7.36
Exon sequences
Seq C1 exon
GGCTCCCCCAGCCCCCAGCCAGAATGCCTGTCCCCGTGGCATGCATGCCATCGTCAGCTGCGTGCCCGGCCCTGCCTTCCAGCAGAACAAGAACAGGGACAAGAAACCTCCCCGCAAAGCCTCCGTGGGAAAG
Seq A exon
GTGAGCCCTGGCACAGTCCCATGCCCTAACCCCAAGGCAGGCACCCAGGGCCGGGCAGCACCCACTGAGTGACTGTTCCTCATGCCAG
Seq C2 exon
GATCTTCCCGTGCGCCTGCGAGCGGGTGCCCATGCTGGAGAGGGCCGAGTGGAGGTGCTGCGCCACGGGCAGTGGGGCACCGTGTGCGGCCGGCGCTGGGACCTGGCAGCAGCCAGCGTGGTGTGTCGGCAGCTGGGCTACGGCACGGCCAGGCAGGCACTGCTGGGAGCACAGATGGGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.600 A=NA C2=0.210
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(18.1=46.7)
A:
NA
C2:
PF0053013=SRCR=PU(56.1=88.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAAGAAACCTCCCCGCAAA
R:
CAGCTGCCGACACACCAC
Band lengths:
171-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]