GgaINT1016883 @ galGal4
Intron Retention
Gene
ENSGALG00000013090 | LOXL4
Description
lysyl oxidase-like 4 [Source:HGNC Symbol;Acc:HGNC:17171]
Coordinates
chr6:21803005-21803511:+
Coord C1 exon
chr6:21803005-21803167
Coord A exon
chr6:21803168-21803267
Coord C2 exon
chr6:21803268-21803511
Length
100 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
CAATGTTTCTTCTGTGCCAGATG
3' ss Score
7.77
Exon sequences
Seq C1 exon
GAGACCTGGTACTGGGCAGGCAGCCCCGACGCCTCGCAGGTGCTGATGAGTGGGGTGCGCTGCACGGGCACAGAGCTGGCCCTGCAGCAGTGCCAGCGCCACGGCCCCGTGCACTGCCCCACTGGCGGGGGACGCTTCTCGGCAGGGGTCACTTGCACCACCC
Seq A exon
GTGAGTACCCAGGGGGGCCCATCCTCCTGGTGGGACGCAGATCTGCACAGAGCAGGGGGTGGCAGTGTGGGGGCCACCGGCAATGTTTCTTCTGTGCCAG
Seq C2 exon
ATGCCCCGGACCTGGTGATGAACGCCCAGCTGGTGCAGGAGACAGCTTACCTAGAGGATCGCCCCTTGGGGCTGCTGTACTGCGCCCACGAGGAGCGCTGCCTGTCCCGCTCTGCTGACACCATGCAGTGGCCCTACGGCCACCGCCGCCTGCTCCGCTTCTCCTCCCAGATCCACAACCTGGGCAGAGCTGATTTCCGACCCCGGATGGGACGGCATGCCTGGACCTGGCACCAGTGCCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013090:ENSGALT00000021368:9
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(49.1=94.5)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PU(38.7=96.3)
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:
AGGTGCTGATGAGTGGGGTG
R:
CACTGCATGGTGTCAGCAGAG
Band lengths:
256-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]