GgaINT1016878 @ galGal4
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
lysyl oxidase-like 4 [Source:HGNC Symbol;Acc:HGNC:17171]
Coordinates
chr6:21803268-21803877:+
Coord C1 exon
chr6:21803268-21803511
Coord A exon
chr6:21803512-21803761
Coord C2 exon
chr6:21803762-21803877
Length
250 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CTCACCCCCTGTCCCCACAGGCA
3' ss Score
12.86
Exon sequences
Seq C1 exon
ATGCCCCGGACCTGGTGATGAACGCCCAGCTGGTGCAGGAGACAGCTTACCTAGAGGATCGCCCCTTGGGGCTGCTGTACTGCGCCCACGAGGAGCGCTGCCTGTCCCGCTCTGCTGACACCATGCAGTGGCCCTACGGCCACCGCCGCCTGCTCCGCTTCTCCTCCCAGATCCACAACCTGGGCAGAGCTGATTTCCGACCCCGGATGGGACGGCATGCCTGGACCTGGCACCAGTGCCACCG
Seq A exon
GTGAGTCTCCCACATCCTGGGGCCAGGCTGGGTACCCGAGGAGCCAAGCAGCTACGTCTCCCTTGGTTGTGTCCCTCCTACACAGCCCCCACCCTTGGCAGAAACTGTCCCGCCCGGAGTAATTAGCAGCGTCCGGGCCGACACTGTCATTAGGGCTTTATTTGGATACAAGGCTGTAATTTGCGCGGAGCTGCTCTCTTCTAGGTGCTGCCCGTCTTGCTCTGGCCCCACTCACCCCCTGTCCCCACAG
Seq C2 exon
GCACTTCCACAGCATTGAGGTCTTCACCCACTACGACCTGCTGACGCTCAACGGCTCCAAGGTGGCCGAGGGGCACAAGGCCAGCTTCTGCCTGGAGGACACCAACTGCCCCGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:10
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=PU(38.7=96.3)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(19.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTTACCTAGAGGATCGCCC
R:
TTGGTGTCCTCCAGGCAGAAG
Band lengths:
306-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]