GgaINT0044046 @ galGal4
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
lysyl oxidase-like 4 [Source:HGNC Symbol;Acc:HGNC:17171]
Coordinates
chr6:21800862-21801559:+
Coord C1 exon
chr6:21800862-21801073
Coord A exon
chr6:21801074-21801520
Coord C2 exon
chr6:21801521-21801559
Length
447 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGG
5' ss Score
7.63
3' ss Seq
CCTGGCTCTGCTCCTTGCAGGAA
3' ss Score
10.56
Exon sequences
Seq C1 exon
GGGCCAGGGCTGAGCTTGGAGGAGGTGCGGATCAAACCCATCCTGGCTTGGGCTAAGCTGAGCATGCCAGTGGTGGAGGGAGCAGTGGAGGTGAAGTACAACGGGCGCTGGAGACAGGTGTGCGACGCTGGCTGGACCCAGAATAACAGCCGTGTAGTGTGTGGGACGCTGGGCTTCCCCCGCGAGAAGCGTGTCAACACCAGCTTCTACCG
Seq A exon
GTAGGGATGGATGGATGTGCCATGGGATAGGGATGGATGGATGTGCTACGGGGATTTGGGGTATGGTGAAGAGAGGCTGCTAGTGAAGGGGTGCAGATGTAGCTAGGGGCATGGGGCACGTGTCCATGCCTGTGTCCCCTTCCTTGGGGCCTCAGCTTGAGCTCAGCAGCAGCCAGGGACTGCGGGATGCTCCCCTGCTTTGCTCTGTGCAGCATGGGTATAGGCACAGGAGAGCCGAGCCTTGTGCTGGGCTATAAATACAGCCCATAATGAGTCCCTGCCGGTGCCAGGCGTCTTGTCATCCCTGCTGGGCATGCAGTACAGCAGGATTTGGCACAAGATTGTCACTGAGGAGAGAACCCTACCGTGCAATGGGGTGCCAGGGAAGGCAGGGATAGGGGCGCAGTGGTGCTGAACCCCCAAACCTCCTGGCTCTGCTCCTTGCAG
Seq C2 exon
GAAGCTCTGGAACATGAAGCTGAAGGACCCCAGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:3
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=PU(43.1=70.4)
A:
NA
C2:
PF0053013=SRCR=FE(11.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGGGCTGAGCTTGGAG
R:
GAGCTGGGGTCCTTCAGCTTC
Band lengths:
246-693
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]