GgaINT1016882 @ galGal4
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
lysyl oxidase-like 4 [Source:HGNC Symbol;Acc:HGNC:17171]
Coordinates
chr6:21801521-21801874:+
Coord C1 exon
chr6:21801521-21801559
Coord A exon
chr6:21801560-21801648
Coord C2 exon
chr6:21801649-21801874
Length
89 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CCGCTGCTCTCCTCTGGCAGCCT
3' ss Score
8.22
Exon sequences
Seq C1 exon
GAAGCTCTGGAACATGAAGCTGAAGGACCCCAGCTCCAG
Seq A exon
GTATGGCTCAGCCCTGGGCAGGGGGCACCAGCGCAGGAGCCCTCCCCCAGAAAAAACTTACACTTCTTCCCGCTGCTCTCCTCTGGCAG
Seq C2 exon
CCTGAGAAACCTGAGCCAGAAGAGCAGTTTCTGGGTGCACCGTGTGCAGTGCCAGGGCACAGAGCCCCACCTGTCACGCTGCTCCACACGGCTGGCTCCCCCAGCCCCCAGCCAGAATGCCTGTCCCCGTGGCATGCATGCCATCGTCAGCTGCGTGCCCGGCCCTGCCTTCCAGCAGAACAAGAACAGGGACAAGAAACCTCCCCGCAAAGCCTCCGTGGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:4
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=0.355
Domain overlap (PFAM):
C1:
PF0053013=SRCR=FE(11.2=100)
A:
NA
C2:
PF0053013=SRCR=PD(44.8=68.4)
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:
CATGAAGCTGAAGGACCCCAG
R:
AGCTGACGATGGCATGCATG
Band lengths:
179-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]