RnoINT0086077 @ rn6
Intron Retention
Gene
ENSRNOG00000015727 | Loxl4
Description
lysyl oxidase-like 4 [Source:RGD Symbol;Acc:1308588]
Coordinates
chr1:261838350-261838930:-
Coord C1 exon
chr1:261838794-261838930
Coord A exon
chr1:261838462-261838793
Coord C2 exon
chr1:261838350-261838461
Length
332 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TGACGTCTCCTTCACTGCAGGTG
3' ss Score
10.72
Exon sequences
Seq C1 exon
GAGTGCAGCGGCGCTATGCGTGTGCTAACTTTGGGGAACAGGGAGTGGCTGTAGGCTGCTGGGACACCTACCGGCACGACATCGATTGCCAGTGGGTGGATATCACAGATGTGAGTCCAGGGGACTATATCTTCCAG
Seq A exon
GTAAGGAGGATTCTCCAGCAGTTTAGAGACTCTGTGTATCAGAAAAAGGCGGTTTCCCATGGGATCCAACAGACCTGTTCCTTTTAGGAGCTGTATGGTAGGAGAAGAGCCCTAAGGGGACCCCAAGGCTCTGGGTTTCCGTCCCGATCCAGTGGACACCGTGTAGTTCTTAGTCTTCATCTGTGAAGAGGGATGGTGATGCCTGCTTCCTGGGGTGACTATGGATCAGCAAATCTGGGCATTTTGTGGAATACTAGGGAAGATGAAAAGGACCCTGAATGTCAACACCTTGAGAAGCCACATCACCCACTTTGACGTCTCCTTCACTGCAG
Seq C2 exon
GTGGTTGTGAACCCCACAAATGATGTGGCAGAATCAGACTTCTCCAACAACATGATTCGATGCCGCTGCAAGTATGACGGGCAGCGAGTCTGGCTGCACAACTGCCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015727:ENSRNOT00000021144:13
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:
GCGTGTGCTAACTTTGGGGAA
R:
CAGTTGTGCAGCCAGACTCG
Band lengths:
224-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]