RnoINT0086072 @ rn6
Intron Retention
Gene
ENSRNOG00000061373 | Loxl3
Description
lysyl oxidase-like 3 [Source:RGD Symbol;Acc:1311011]
Coordinates
chr4:113881912-113882426:+
Coord C1 exon
chr4:113881912-113882074
Coord A exon
chr4:113882075-113882182
Coord C2 exon
chr4:113882183-113882426
Length
108 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
ACCATCACTCTCTCACATAGCTG
3' ss Score
7.04
Exon sequences
Seq C1 exon
GAGACCTGGTACTGGGACTCGGGGAATGTAACTGAGGTGGTGATGAGCGGAGTACGTTGCACAGGGTCTGAGCTGTCCCTGAACCAATGTGCTCACCACAACACCCACGTCACCTGCAAGAGGACAGGCACCCGCTTCACTGCAGGAGTCATCTGTTCTGAGA
Seq A exon
GTGAGTAGTATAAGCTAGAGGGGCTTGTTTGGAGGGGCTGTGTTGTGACCCACCAGTCTCCCAGGAGCTGGAAGCACCCTCCATGGTAACCATCACTCTCTCACATAG
Seq C2 exon
CTGCTTCGGATCTGCTGCTGCACTCAGCACTGGTACAGGAGACTGCTTATATTGAAGACCGACCGTTGCACATGTTGTACTGTGCTGCTGAAGAGAACTGCCTGGCAAGCTCCGCCCGCTCAGCTAACTGGCCCTACGGCCACAGGCGTCTGCTCCGATTCTCTTCCCAGATCCACAACCTAGGAAGAGCTGACTTTAGGCCCAAGGCTGGGCGCCATTCCTGGGTGTGGCATGAGTGTCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061373:ENSRNOT00000081196:9
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:
CCTGAACCAATGTGCTCACCA
R:
GAAGAGAATCGGAGCAGACGC
Band lengths:
252-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]