RnoINT0086061 @ rn6
Intron Retention
Gene
ENSRNOG00000061373 | Loxl3
Description
lysyl oxidase-like 3 [Source:RGD Symbol;Acc:1311011]
Coordinates
chr4:113882183-113882641:+
Coord C1 exon
chr4:113882183-113882426
Coord A exon
chr4:113882427-113882525
Coord C2 exon
chr4:113882526-113882641
Length
99 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
ACGAGTTCCCTTTCCCACAGGCA
3' ss Score
9.25
Exon sequences
Seq C1 exon
CTGCTTCGGATCTGCTGCTGCACTCAGCACTGGTACAGGAGACTGCTTATATTGAAGACCGACCGTTGCACATGTTGTACTGTGCTGCTGAAGAGAACTGCCTGGCAAGCTCCGCCCGCTCAGCTAACTGGCCCTACGGCCACAGGCGTCTGCTCCGATTCTCTTCCCAGATCCACAACCTAGGAAGAGCTGACTTTAGGCCCAAGGCTGGGCGCCATTCCTGGGTGTGGCATGAGTGTCACGG
Seq A exon
GTGAGAGGGCAGGAGGGGCCCAGAGAGCAAGGCAAGGCTGCAGGGGTGTGAGAAGCCTGCTGGGATGTGGGGAAAAATCACGAGTTCCCTTTCCCACAG
Seq C2 exon
GCATTACCACAGCATGGACATCTTCACTCATTATGATATCCTGACCCCCAACGGCACCAAGGTGGCTGAGGGCCACAAAGCTAGTTTCTGTCTAGAAGACACTGAGTGTCAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061373:ENSRNOT00000081196:10
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:
TGCTCCGATTCTCTTCCCAGA
R:
AACTAGCTTTGTGGCCCTCAG
Band lengths:
180-279
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]