RnoINT0086064 @ rn6
Intron Retention
Gene
ENSRNOG00000061373 | Loxl3
Description
lysyl oxidase-like 3 [Source:RGD Symbol;Acc:1311011]
Coordinates
chr4:113882966-113883477:+
Coord C1 exon
chr4:113882966-113883077
Coord A exon
chr4:113883078-113883207
Coord C2 exon
chr4:113883208-113883477
Length
130 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGAT
5' ss Score
0.56
3' ss Seq
AGTGCCTGTCTTCTCTGCAGGTG
3' ss Score
11.39
Exon sequences
Seq C1 exon
GTGGTTATCAACCCAAATTTTGAGGTAGCAGAAAGTGACTTCACCAACAATGCTATGAAGTGCAACTGCAAATACGACGGGCATCGCATCTGGGTGCACAACTGCCACATTG
Seq A exon
GTAGATGACGGGAAGGGTGAATGCAGGGCAGGAGGGATACACTTCCATCCTGTCACCACTGCCCATAACGGGTATGCGCTCCTGCCTCTGTGCAGGGACAGCCCCTCAATAGTGCCTGTCTTCTCTGCAG
Seq C2 exon
GTGATGCCTTCAGTGAAGAAGCCAACAGGAGGTTTGAGCGCTACCCAGGCCAGACCAGTAACCAGATTGTCTAAAATGCTACCGCCCTCTCTGCAAACCACCACTGGCCCCCAATGGCAGGGGTCTGAGGCTGCCATTACCTCAGGAGCTTACCACAAGAACCCCTGATGTCAGCAGGCGCACTACAAATGATGAACTGTTGAAGAGAAGTTGGTGCCTCCCTTACTTGGTCAGCTGGCATTACCTTTGGCCAAGCATGGATAATCAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061373:ENSRNOT00000081196:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=FE(18.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(1.0=8.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGCAAATACGACGGGCAT
R:
ATCATTTGTAGTGCGCCTGCT
Band lengths:
242-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]