GgaINT0135572 @ galGal3
Intron Retention
Gene
ENSGALG00000000402 | LOXL2
Description
NA
Coordinates
chr22:1248159-1249005:+
Coord C1 exon
chr22:1248159-1248295
Coord A exon
chr22:1248296-1248903
Coord C2 exon
chr22:1248904-1249005
Length
608 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
GTTTCTCCATCACTCCCAAGGTC
3' ss Score
7.26
Exon sequences
Seq C1 exon
ATGTGCAAAAACAGTACGAATGTGCCAATTTTGGGGAACAAGGGATCACTGTTGGCTGCTGGGATGTGTACCGACACGACATTGACTGCCAATGGATCGACATCACCGACGTCCCACCAGGAGATTACCTCTTCCAG
Seq A exon
GTATGGGGGAAGGGGTTTATCCAGTAGGGATGCCAGTCTTAAGTAACCCACATGCAGCCAATATTGGGTAGTCCTCCACCATCCATGTGCAGCTAATGCCAATAACACAGATAGCTGACATAGGATGCAAGGCGTTGTCTTGGACAAAGCTCTGAGGTTGTCTGTAAGCAATGCTTGCTTTGCTTGGGTTTGGATGAAGTGCTATTCTTGGGGTGTTTGCATGAGTTCTGTGCCCGCCGTCTGCTTTGTGCAAGGGGAAGGAGGTGGGGGGAAATTCTTTGGTTCTAAAAACAGCCCGGAGCTGCAGAGGAGCGAAGGGAGGAGGCATTATTTTTGTCTTCACTGCTATGGTGTGAAATGGAGAGGTGTTTGAGGGTATATTTTGGTGCACGGGCGAAGGTGTGATCTTGATCTGGTTTTAATTAAGGAGCCTCTGTCTGCTTCCTAAGTGAGTTACAGTCACAGACTCCTTCAAGTTGGAAAAGACCATTAAGATCATACAGTCCAACCATGATCATGCTCTCAACCTGACCCTGCCTCCCGCTGACGGCTCTCACACCCATTCACCTCCAATTAACTCTATCCTGCGTTTCTCCATCACTCCCAAG
Seq C2 exon
GTCGTCATCAACCCCAACTATGAAGTGGCTGAATCTGACTACTCCAACAACGTGATGAAATGCCGGAGTCGGTACGACGGGCAGCGCATCTGGATGTACAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000402:ENSGALT00000000548:11
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(22.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(16.2=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:
TGTGCAAAAACAGTACGAATGTGC
R:
GTTGTACATCCAGATGCGCTG
Band lengths:
238-846
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]