RnoINT0086062 @ rn6
Intron Retention
Gene
ENSRNOG00000061373 | Loxl3
Description
lysyl oxidase-like 3 [Source:RGD Symbol;Acc:1311011]
Coordinates
chr4:113882526-113882851:+
Coord C1 exon
chr4:113882526-113882641
Coord A exon
chr4:113882642-113882714
Coord C2 exon
chr4:113882715-113882851
Length
73 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
ACATATAACACTCCCTTCAGATG
3' ss Score
7.14
Exon sequences
Seq C1 exon
GCATTACCACAGCATGGACATCTTCACTCATTATGATATCCTGACCCCCAACGGCACCAAGGTGGCTGAGGGCCACAAAGCTAGTTTCTGTCTAGAAGACACTGAGTGTCAGGAGG
Seq A exon
GTGAGTTGGGGCCAGAGTGGACTTAAACCCAGGCATAGCTTTGCCCTTCACTGACATATAACACTCCCTTCAG
Seq C2 exon
ATGTCTCCAAGAGATATGAGTGTGCCAACTTTGGAGAGCAGGGCATCACTGTGGGATGCTGGGACCTCTACAGGCATGACATTGACTGTCAGTGGATTGACATCACAGATGTGAAACCAGGAAACTACATTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061373:ENSRNOT00000081196:11
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(19.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(22.1=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:
TGATATCCTGACCCCCAACGG
R:
CAATGTCATGCCTGTAGAGGTCC
Band lengths:
167-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]