RnoINT0086070 @ rn6
Intron Retention
Gene
ENSRNOG00000061373 | Loxl3
Description
lysyl oxidase-like 3 [Source:RGD Symbol;Acc:1311011]
Coordinates
chr4:113881339-113881826:+
Coord C1 exon
chr4:113881339-113881493
Coord A exon
chr4:113881494-113881658
Coord C2 exon
chr4:113881659-113881826
Length
165 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TCCCCTCTATGCCTCTACAGATC
3' ss Score
10.98
Exon sequences
Seq C1 exon
GCATGGGTGCCATCCACTTGAGTGAAGTTCGGTGCTCTGGCCAGGAACCCTCCCTTTGGAAATGCCCCTCTAAGAACATCACAGCTGAGGACTGTTCCCATAGCCAGGATGCAGCTGTCCGGTGCAACCTCCCCTACACTGGGGTGGAGACCAAG
Seq A exon
GTCAGTCATACATTCTACGTTCTACTTTAGGTCTTTACCCAGGCCCGGACGTCCCTCAGCTCCCACACAACCCTGCCCTTTGTGAGCCCTTTCTCTGCCCCTGCTCCCTGCTCTAGACTGCCATCCCCAAAGCTCCCCCTGCACTTCCCCTCTATGCCTCTACAG
Seq C2 exon
ATCCGACTCAGTGGGGGCCGCAGTCGATACGAAGGGCGAGTCGAGGTGCAAATAGGGGTACCTGGGCATCTACGCTGGGGCCTCATCTGTGGGGATGACTGGGGAACACTGGAGGCCATGGTGGCCTGTAGGCAACTTGGTCTTGGCTACGCCAACCACGGCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061373:ENSRNOT00000081196:7
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(42.9=80.8)
A:
NA
C2:
PF0053013=SRCR=PU(49.1=92.9)
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:
CTCCCTTTGGAAATGCCCCTC
R:
GCCAAGACCAAGTTGCCTACA
Band lengths:
253-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]