RnoINT0086063 @ rn6
Intron Retention
Gene
ENSRNOG00000061373 | Loxl3
Description
lysyl oxidase-like 3 [Source:RGD Symbol;Acc:1311011]
Coordinates
chr4:113882715-113883077:+
Coord C1 exon
chr4:113882715-113882851
Coord A exon
chr4:113882852-113882965
Coord C2 exon
chr4:113882966-113883077
Length
114 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTCT
5' ss Score
2.68
3' ss Seq
GTGTTCTTCCTCACTCACAGGTG
3' ss Score
11.38
Exon sequences
Seq C1 exon
ATGTCTCCAAGAGATATGAGTGTGCCAACTTTGGAGAGCAGGGCATCACTGTGGGATGCTGGGACCTCTACAGGCATGACATTGACTGTCAGTGGATTGACATCACAGATGTGAAACCAGGAAACTACATTCTTCAG
Seq A exon
GTGTCTGGCATCTGCCTGGCCTCTCAGATACTGGGGTTTGGGGTGGGTGATGACCCGTAGGAGTGCAGCTAGTCACGCCAGCTAGGTCACGCCAGTGTTCTTCCTCACTCACAG
Seq C2 exon
GTGGTTATCAACCCAAATTTTGAGGTAGCAGAAAGTGACTTCACCAACAATGCTATGAAGTGCAACTGCAAATACGACGGGCATCGCATCTGGGTGCACAACTGCCACATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061373:ENSRNOT00000081196:12
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(18.1=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:
TCCAAGAGATATGAGTGTGCCA
R:
GTTGTGCACCCAGATGCGAT
Band lengths:
234-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]