GgaINT1016867 @ galGal4
Intron Retention
Gene
ENSGALG00000013254 | LOXL3
Description
lysyl oxidase-like 3 [Source:HGNC Symbol;Acc:HGNC:13869]
Coordinates
JH375171.1:146290-146804:+
Coord C1 exon
JH375171.1:146290-146464
Coord A exon
JH375171.1:146465-146747
Coord C2 exon
JH375171.1:146748-146804
Length
283 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGT
5' ss Score
7.7
3' ss Seq
CCTGTGCTCCTCCCTTGCAGATG
3' ss Score
13.47
Exon sequences
Seq C1 exon
GTTGCACAGTGGCGCAGTCGGGCCCGCTCCTTCCAGCAGCTCTGTGCCCAGACGTGCTGCCTGCACAGCCGCTTCGTCCACAGTGCGGGGCAGGCGCTGCTCTACGACCTCCACCCCTACCTGTGGGACATCCGCAACCTGCTGCTGGCTGCCAGCGCCTTTGTGCTGTGGTTGG
Seq A exon
GTACGTGAAGGAGGGCACCCCGGGGGACAGTTCTCTGCCTTGGGCCTCCTACCCACACCTGGCCAAACCCAGCCCGGGTCCCAAAGGGCCCCTGGGCAGAGTAGAACAGCCAGTGCACCTTAATCTTGCTTTGTCATTCCGCCTAAAGATGTGAAAGTACCTGGGAGCCCTCCCAGCAGTCTGAGTCCTGGGGTATGGCCATGATGACAGGGTCTCTGGTGGGAGCATTTCCCTTTGACCCCCTCCCCGTGTGCTACGCGTGCCCTGTGCTCCTCCCTTGCAG
Seq C2 exon
ATGGCCGCCTCCTGTGTGATCCTGACCACAAGGGCACCTGGGGAAGCTGCTTTGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013254:ENSGALT00000021647:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.053
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCACAGTGGCGCAGTC
R:
CCAAAGCAGCTTCCCCAGG
Band lengths:
229-512
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]