GgaINT0000223 @ galGal3
Intron Retention
Gene
ENSGALG00000013254 | LOXL3
Description
NA
Coordinates
chr4_random:112591-113158:+
Coord C1 exon
chr4_random:112591-112771
Coord A exon
chr4_random:112772-113003
Coord C2 exon
chr4_random:113004-113158
Length
232 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GCTTTGCTGTCCCTCTGCAGGGA
3' ss Score
10.99
Exon sequences
Seq C1 exon
CCGCGGATCCGGCTGAAGGGCGGTGCCAAGGCCGGGGAGGGCCGTGTCGAGGTGCTGAAGAACAATGAGTGGGGCACAATCTGCGATGACCGCTGGAATCTGCTGTCTGCCAGTGTGGTGTGCCGAGAGCTGGGCTTTGGCAGTGCCAAGGAAGCCCTCACTGGGGCACGCATGGGCCAAG
Seq A exon
GTGAGAGCGCTGTGGCAGAGGGGCCGGGCACTGCCTTCAGCCCACTGTGCTGCACGTGCCCTGTGGGCACCTGGATGCAGGGTGTGGGTTTTGCCCTGAGCATCTCCAGGGCCGGGGCTGCTGGGCCAGTCTGCCCCTGCTGGCAGCTGGGAAGGGCAGGGCTGGGCTGTGGGGATGGGATGGTTACAGCATCCCCATGCAGCTGGCACTGAGCTTTGCTGTCCCTCTGCAG
Seq C2 exon
GGATGGGGCCCATCCACCTGAATGAGGTGCAGTGCCTGGGCACTGAGAAGTCCCTCTGGAGCTGCCCGTTCAAGAACATCACGCAGGAGGACTGCAAGCACACAGAGGACGCGGCCGTGCGCTGCAACATCCCCTACATGGGCTACGAGAACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013254:ENSGALT00000021647:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(56.1=90.2)
A:
NA
C2:
PF0053013=SRCR=PD(42.9=80.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGTCGAGGTGCTGAAGAAC
R:
GGTTCTCGTAGCCCATGTAGG
Band lengths:
292-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]