GgaINT0135567 @ galGal4
Intron Retention
Gene
ENSGALG00000000402 | LOXL2
Description
lysyl oxidase-like 2 [Source:HGNC Symbol;Acc:HGNC:6666]
Coordinates
chr22:1232526-1232979:+
Coord C1 exon
chr22:1232526-1232677
Coord A exon
chr22:1232678-1232811
Coord C2 exon
chr22:1232812-1232979
Length
134 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TGGTTTTTTTTGCCCTACAGCTG
3' ss Score
9.99
Exon sequences
Seq C1 exon
GCATGGGTCCAATCCATCTAAACGAAATCGACTGTACAGGATTTGAGAAATCCCTCACAGACTGCAAGTTCAACATGGAGTCGCAGGGCTGTAACCACGAGGAAGATGCTGCTGTGAGATGCAACGTTCCCGCGATGGGTTTCCAGAACCAG
Seq A exon
GTGAGAGAAGCCCAGAAGTTTAAATTCCTGAAGTTTTTAGCCTCAAAGCCAACCTGTAATCCTTGCCCAGCTGCTGCACCACCTCTGTTTGCAGTGACCTTTACTGATGGGTTTTGGTTTTTTTTGCCCTACAG
Seq C2 exon
CTGCGCCTGGTTGGTGGTCGCAACCCATACGAGGGCCGGGTGGAGGTGCTGGCGGAACGCAATGGCACGCTGCGTTGGGGCACGGTCTGCAGCCAGGGATGGAGCACCGTGGAGGCCATGGTGGTGTGCAGGCAGCTGGGGCTGGGCTTTGCCAGCCATGCCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000402:ENSGALT00000000548:6
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(42.3=80.4)
A:
NA
C2:
PF0053013=SRCR=PU(48.6=92.9)
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:
GAGAAATCCCTCACAGACTGCA
R:
CTGCCTGCACACCACCATG
Band lengths:
243-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]