GgaINT0135573 @ galGal3
Intron Retention
Gene
ENSGALG00000000402 | LOXL2
Description
NA
Coordinates
chr22:1248904-1249806:+
Coord C1 exon
chr22:1248904-1249005
Coord A exon
chr22:1249006-1249786
Coord C2 exon
chr22:1249787-1249806
Length
781 bp
Sequences
Splice sites
5' ss Seq
AACTNNNNN
5' ss Score
0
3' ss Seq
GATCTCTTCTTTACACTTAGTCA
3' ss Score
4.8
Exon sequences
Seq C1 exon
GTCGTCATCAACCCCAACTATGAAGTGGCTGAATCTGACTACTCCAACAACGTGATGAAATGCCGGAGTCGGTACGACGGGCAGCGCATCTGGATGTACAAC
Seq A exon
TNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACCTCTTGTAATTCCCATCCTCCCTGCTGAGGATGTTGGGAGCAGGCTTTCAAACTCTACTGGGCTCCAACCTATCTCCACCAGGACTTCTCCCTCCGTTTTGCAGGACCATCTTTATGTGTGTGCACAGCTCCGGGCTGCAGTGAGCACAGTTTGCCTTTGGTTGGGTATCAACAACCTCAATGGGTCTTTACCATTCATTTTCTTCAAATTTCGGTACTTTTAAGCTCAAGCTGAAGCACCATCGACGCATCCTCTTCCATTTGTGATGGTGCTTATCCTCAGCACTGCTGCCACTGCTCCATTTTAGCAAAGAAACACGGGAAAGAAAACAAGCAAACAAACAAAAATCGAAGCGTTCTTTCTGAGCAGAACAGTCTAAAGCATAATTTAATACTGCAACCAAACTCTTGCATTCAACAACCGACTCCCGGAACCACCCCTTCAATGGAGCAGTGAATGCAGAACTCTGCCTACATCCGCAGCAGAGCTCCACCACCACCCAGCAGCCACGATGGATCCACAGGATTGTTGCTTCCCCACTGCACAGTAAGCAATTCACCCAACAGCCCCCCACATCCATCTACACGTTACCTTCTAAGCTGGATATTCACTCTGTCTTTCGAAGGATGAGTTTAGTTAAGGCATTGTATCCCTGTACCTTACAGAGGTAACTTCGTGGCTTGCATCGCTGGGGATGCGCTGACCGCCTGCCTACGTTGGCTTTGAGGATCTCTTCTTTACACTTAG
Seq C2 exon
TCAGTTCACAATGGTGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000402:ENSGALT00000000548:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=FE(16.2=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(2.5=71.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]