GgaINT0135571 @ galGal3
Intron Retention
Gene
ENSGALG00000000402 | LOXL2
Description
NA
Coordinates
chr22:1247722-1248295:+
Coord C1 exon
chr22:1247722-1247837
Coord A exon
chr22:1247838-1248158
Coord C2 exon
chr22:1248159-1248295
Length
321 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TGTGCTTTCAACTCCTTCAGATG
3' ss Score
9.79
Exon sequences
Seq C1 exon
GCATTACCACAGCATGGAGGTCTTCACCCACTATGACCTACTGAACCTCAATGGGACCAAAGTAGCTGAAGGACACAAAGCCAGCTTCTGTCTGGAAGACACCGAATGTGAAGCAG
Seq A exon
GTATGCCTGTCCCCTTATTCTCTATGGTGTAAGAGGAAGCCTACAGACCCCGTGTGTTGAGGCTGCCAGACCTCAGCTTCTTCCTTACATACAAAGTGTGCATGTTCTCATTCCCATTAAGCCTCTGGGTGAGGACACAGCAGAGGTGGCAGCTCCTCCCATGTGTGTTACTGGTACCTCCATTTCAATACAAGGTGTTAAGCAAAGCAGTGTTGAACTGTGTGCCTGTGTAGCTTATTGCTACCCATGGGAGCTAGAAAACAACCCACCCCTCCCCTGACACGGTCTGAGAACCCAACACTGTGCTTTCAACTCCTTCAG
Seq C2 exon
ATGTGCAAAAACAGTACGAATGTGCCAATTTTGGGGAACAAGGGATCACTGTTGGCTGCTGGGATGTGTACCGACACGACATTGACTGCCAATGGATCGACATCACCGACGTCCCACCAGGAGATTACCTCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000402:ENSGALT00000000548:10
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(19.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(22.1=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:
CACAGCATGGAGGTCTTCACC
R:
CTGGAAGAGGTAATCTCCTGGTG
Band lengths:
246-567
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]