GgaINT0000222 @ galGal3
Intron Retention
Gene
ENSGALG00000013254 | LOXL3
Description
NA
Coordinates
chr4_random:112070-112771:+
Coord C1 exon
chr4_random:112070-112289
Coord A exon
chr4_random:112290-112590
Coord C2 exon
chr4_random:112591-112771
Length
301 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGACCCTTCTGCCCCACAGCCG
3' ss Score
8.97
Exon sequences
Seq C1 exon
GCTGTTTGCGGAGCGGCAGCAGCTCAACTACCGCCTGCACTCAGTGTCCTGCACAGGGACAGAGGTGCACATCTCCATGTGCACGTTCCAGTTCTACCGGGGCAACTCCTCAGCAGCCTGCAGCACTGGCATGCCCGCTGTTGTCAGCTGCCTGCCCGGGCCCCTCTTTGCTACCAGCAGCACCCAGAAGAAGAAGCAGCGCCAGCAGCAGCAGAGCCAG
Seq A exon
GTGAGCCTTGGCTGGGTCCTGCGGTGGTCCACAGCTGCTGCCGCCCTACGCAGGGCTTTGTCCCCCAGTCCCCTCAGTTGGCTGAGGGTGAGGGTGCAGGGAACCCATAGGGCAGGAGGTGGGGATGGTGTCCTGTCCCTAAATGTCACTCAGTCACGGCAGCTGCCTCTGTGCTGTGCTAAGTGTGCAGTGCCATGCTGTGCTGCACCATGTGCTGCGCTGTGCTGCACCGTGCCATGCTGTACAGCACCGTGCTGCACTGTGCCGTGCCATGTTGTGCCCTGACCCTTCTGCCCCACAG
Seq C2 exon
CCGCGGATCCGGCTGAAGGGCGGTGCCAAGGCCGGGGAGGGCCGTGTCGAGGTGCTGAAGAACAATGAGTGGGGCACAATCTGCGATGACCGCTGGAATCTGCTGTCTGCCAGTGTGGTGTGCCGAGAGCTGGGCTTTGGCAGTGCCAAGGAAGCCCTCACTGGGGCACGCATGGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013254:ENSGALT00000021647:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.131
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(49.0=68.9)
A:
NA
C2:
PF0053013=SRCR=PU(56.1=90.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTACCGCCTGCACTCAG
R:
GTGAGGGCTTCCTTGGCAC
Band lengths:
357-658
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]