GgaINT0000224 @ galGal3
Intron Retention
Gene
ENSGALG00000013254 | LOXL3
Description
NA
Coordinates
chr4_random:113004-114730:+
Coord C1 exon
chr4_random:113004-113158
Coord A exon
chr4_random:113159-114556
Coord C2 exon
chr4_random:114557-114730
Length
1398 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
GCCGCTGCGTCTCTCCGCAGATT
3' ss Score
11.98
Exon sequences
Seq C1 exon
GGATGGGGCCCATCCACCTGAATGAGGTGCAGTGCCTGGGCACTGAGAAGTCCCTCTGGAGCTGCCCGTTCAAGAACATCACGCAGGAGGACTGCAAGCACACAGAGGACGCGGCCGTGCGCTGCAACATCCCCTACATGGGCTACGAGAACCTG
Seq A exon
GTATGTGCTATGGGGGGGACTGCACGTCTGCAGGGGGACTGAGGGATGGCAGTGGTGTCTGTGGCACTTAAAGAGCACGGGACCCATGGGACCAAATGTCGGACGCCCCCCTGCAGTACCATTTTTGGCCCTCCCCTTGGTTTTCTCCCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAGGGGGACTGAGGGATGGCAGTGGTGTCTGTGGCACTTAAAGAGCACGGGGACCCATGGGACCCAATGTCGGACGCCCCCTGCAGTACCATTTTGCCTCCCTTGTTTCCCCCTGGTTTGGGACAAGGGCCGCCCTGGGGGGTTGGGGCTCTCGGGGGTCCCACGCTGCCCTGTGAGGAGGGAGGATGGGAGAGGGCTCTGGGGCTCAGCAGCACCCTCACACTGTGCAGCTCTGCCTGCTGGTGCCACATCCGCAACCGAAGCACCCCAAAAAAATTGCTGTGAGAGATTTTTTGGGGACCGCCGATGAAATGAGCAAACAGATACGCACCTTTCTGCGTGCTGCTCTCATCTCATCCGCTTCGGGCTTCTAACCGTTCTAACAGTGCCGGGTCTGTCCTTCCATGGATGGGAATGCCATTCCAAATGAATCTTTCTGCCCGCTTTGGGCAATGCTGCTGCACCGGGGCGCCGCTTGCGGTGATGCCGCTGCAGCCGCTGCGTCTCTCCGCAG
Seq C2 exon
ATTCGGCTGAGCGGGGGCCGCAGCCGCTTCGAGGGGCGCGTGGAGGTGGCGGTGGGGGCTGCAGAAGGGGACGAGCCGCGCTGGGGCCTGGTGTGCGGCGAAGGCTGGGGTACGCTGGAGGCGATGGTCGCCTGTCGCCAGCTGGGGCTGGGATTCGCTAACCACGGCTTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013254:ENSGALT00000021647:6
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:
PF0053013=SRCR=PD(42.9=80.8)
A:
NA
C2:
PF0053013=SRCR=PU(50.0=93.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGGCCCATCCACCTG
R:
TTGTAAGCCGTGGTTAGCGAA
Band lengths:
327-1725
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]