GgaINT1016880 @ galGal4
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
lysyl oxidase-like 4 [Source:HGNC Symbol;Acc:HGNC:17171]
Coordinates
chr6:21803952-21804321:+
Coord C1 exon
chr6:21803952-21804088
Coord A exon
chr6:21804089-21804209
Coord C2 exon
chr6:21804210-21804321
Length
121 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
GTGCCCGTTGCCCTCCCCAGGTG
3' ss Score
10.08
Exon sequences
Seq C1 exon
GGCTGCAGCGTCGCTTTGCCTGTGCCAACTTTGGGGAGCAGGGGGTGAGCGTGGGCTGCTGGGACACCTACCGACATGACATTGACTGCCAATGGATCGACATCACCGATGTGCCGCCAGGCAGCTATACCTTCCAG
Seq A exon
GTATGGGCATGGAGGGACCCCATGCTGGGAGAGCAGGGCTGGGCACCTTTGCTGGCATCCCTACAGAAGTGCAGTGCAGCAGGCAAGGTGCCCCCAACCCCGTGCCCGTTGCCCTCCCCAG
Seq C2 exon
GTGGTGGTGAACCCCAAGCATGAGGTGGCTGAGTCAGACTTCTCCAACAACGTGCTGCGGTGCCAGTGCAAATATGATGGGCAGCGCGTCTGGATGCATGGCTGTCACACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:12
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:
PF0118612=Lysyl_oxidase=FE(22.1=100),PF077056=CARDB=PU(48.8=43.5)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(18.1=100),PF077056=CARDB=PD(46.3=50.0)
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:
CAGCGTCGCTTTGCCTGT
R:
GTGTGACAGCCATGCATCCAG
Band lengths:
242-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]