GgaINT0135569 @ galGal4
Intron Retention
Gene
ENSGALG00000000402 | LOXL2
Description
lysyl oxidase-like 2 [Source:HGNC Symbol;Acc:HGNC:6666]
Coordinates
chr22:1235226-1236270:+
Coord C1 exon
chr22:1235226-1235391
Coord A exon
chr22:1235392-1236026
Coord C2 exon
chr22:1236027-1236270
Length
635 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
CACCACTTCCCTCCCACCAGCTG
3' ss Score
7.48
Exon sequences
Seq C1 exon
GAAACCTGGTACTGGCATGGAGATGTCAGTGCTGACAGCGTGGTCATGAGTGGGGTCAAGTGCTCGGGGACGGAGATGTCCCTGGCCCACTGTCGTCATGATGGAGCTGACGTCTCCTGTCCTAGAGGAGGAGGTCGCTTTGGTGCTGGCGTGTCCTGCTCGGAGA
Seq A exon
GTGAGTTGCCATAAAATCACAGGTTGGGTTGGGTTGGAAGGGATCTTAAAGATGACAGAATCATAGAGTGGGTTGGGTTGGAAGGGTCCTGAAAGACAATAGAATCACAGAATAGTTGGGTGGGGTGGAAGGGTCCTTAAAGATCATAGAAGCATAGGATGGGTTGGGGTGGAAGGGTCCTTAAAGATCACAGAAGCATAGGATGGGTTGGGGTGGAAGGGTCCTTAAAGATCATAGAAGCATAGAATGGAATGGGGTGGAAGGATCCTTAAAAATGATAGAATCATTGAACGGTTGGGTTGGAAGGGTCCTTAAAGCCCATCCAGCGCCACCCCCTGCCATGGACGGGTTGCCTCCCACCAGGCCAGGTTGCCCAGAGTCCCATCCAGCCTGACCTTGAGCACGTCAAAGTATAGGACATCCACAAGCTCTCTGGGCTCCATATCAGTGCCTCACCACCCTAACCCAGGCTTCAGTTCATTTTGTTGTATTTGCCCTGAGACGCTGTCATGGAGAAAAGGACCTGCCTCAACAGAGGGATGGGGCTGACCAAAGAAAGGGCTGGACCCATCTCTAGCAAAACTGTGGCGTGCTTTAGGAGTCCATCAGCTTATTCACCACTTCCCTCCCACCAG
Seq C2 exon
CTGCCCCTGACCTGGTGCTCAATGCCGAACTGGTGGAGCAGACTGCCTACCTGGAGGACCGCCCCATGTTCATGCTGCAGTGTGCACAGGAGGAGAACTGCTTGGCCAGCTCTGCCGTCAACACCTCCGTCACCTCCGGGTACCGCCGCCTGCTCCGCTTCTCCTCCCAGATCCACAACAATGGGCAGTCAGATTTCCGCCCCAAAAATGGTCGCCACGCTTGGGTCTGGCATGACTGCCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000402:ENSGALT00000000548:8
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=PD(49.5=94.6)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PU(38.7=96.3)
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:
GGCATGGAGATGTCAGTGCTG
R:
CTGACTGCCCATTGTTGTGGA
Band lengths:
345-980
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]