GgaINT1016881 @ galGal4
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
lysyl oxidase-like 4 [Source:HGNC Symbol;Acc:HGNC:17171]
Coordinates
chr6:21804210-21804682:+
Coord C1 exon
chr6:21804210-21804321
Coord A exon
chr6:21804322-21804404
Coord C2 exon
chr6:21804405-21804682
Length
83 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGG
5' ss Score
6.93
3' ss Seq
AACTCCTCTGCTCTCCCCAGGTG
3' ss Score
10.18
Exon sequences
Seq C1 exon
GTGGTGGTGAACCCCAAGCATGAGGTGGCTGAGTCAGACTTCTCCAACAACGTGCTGCGGTGCCAGTGCAAATATGATGGGCAGCGCGTCTGGATGCATGGCTGTCACACGA
Seq A exon
GTAAGGAGGGTGGGGCCACCGGGGGGTGACCACATGTAGGGTGCCACACGTCCTGACCCCACCAACTCCTCTGCTCTCCCCAG
Seq C2 exon
GTGATGCCTACGGTGCTGATGTGGTGAGTGAGATGGAGCGGCGTGAGCGCCTGGCCAACAATCTGGTGTAAGACCCCATCTCACCCCCCCCACCCCACACCCTGGGGCACCCCAGCCCCTGCCCTGGCTGCAGCAGCACCTGCCTGAGCTCAGGGATTCGACACCTGCCCTATTTATTTCTGCTGCCATGGAGGATGGAGATGAGCATCATGGCTGGTGCAGGGGCCCAGCCCCATGCTGCCGGGAGGACCCCAGCTCCAGTGCTCTGGTGCCCCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=FE(18.1=100),PF077056=CARDB=PD(46.3=50.0)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(1.0=8.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGTGGCTGAGTCAGACTT
R:
GGGGTGAGATGGGGTCTTACA
Band lengths:
179-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]