RnoINT0086066 @ rn6
Intron Retention
Gene
ENSRNOG00000061373 | Loxl3
Description
lysyl oxidase-like 3 [Source:RGD Symbol;Acc:1311011]
Coordinates
chr4:113870628-113871723:+
Coord C1 exon
chr4:113870628-113870791
Coord A exon
chr4:113870792-113871508
Coord C2 exon
chr4:113871509-113871723
Length
717 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGC
5' ss Score
3.9
3' ss Seq
TCTGTCTGGTCCCATCTCAGGTG
3' ss Score
9.07
Exon sequences
Seq C1 exon
GCCGAATCTGGTTGGACAATCTGAGCTGCAAGGGTACTGAAGGAAGTGTGACTGAATGTGCCTCCCGGGGCTGGGGAAACAGTGACTGTACCCATGACGAGGATGCTGGGGTCATCTGCAAGGACCAGCGCCTTCCCGGTTTCTCAGACTCCAACGTCATTGAG
Seq A exon
GTCTGCAGAACACACTTGTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCGTGCACGAAAGACTGCCCGGTGCCATATGTGGTTAGAAGAGATATTATAAAGGTATCCCATAAGCCTTTATAAAATAATGTGCATTTCTGGGAAACTTTGCACCCCGGGCATGCCTAGTGAAGAGAGGCCAGAAGAGGGCACTGGACCCAAGGGACTGGAGCTAGCAGTGGTTCTGAGTTGCCATGTGGGTCCTGGGAATTGAACCTCAGGTCTTCAGGAAGAGTTCTAGCCCTCAAATCCAATTATTTCAAGTATTCACATTGAATTACTAAACCTGACATGAGCTCTCCAGTTTCATTCCTGTTCACCTGTCCCTCTCCCCCATGTTTCTGCTCTCCTCCAATACCTTTCCTACTTCTTCCTCTCCCTAAGACATTTCCATTGGGAAGGCTACCTCATGCTTCAGGAAGACTTATTATAGCTCCCCTTCCTTAGTGCCTTCAGACCCTGTGTGCCACGGCTTAACTCTGTGCCCACTCTGGGGCACATCCCACACATAGGCAGCTGACCTGGCGTTTTCCTCAGTCCTGTTTCAGTGGTCCCATCATTGGGTTTTACACACACAATCAGGGGTCCTTCAGAATGGCATAGTATTGCTACTATGATTTTTTCCCCTGCCTCTGTCTGGTCCCATCTCAG
Seq C2 exon
GTGGATCATCAGCTCCAAGTGGAGGAAGTGCGACTCCGACCAGCTGTGGAGTGGGGCAGGCGACCCCTGCCTGTGACTGAGGGCCTGGTTGAAGTCAGGCTTCCTGAAGGCTGGTCGCAAGTGTGTGACAAAGGCTGGAGTGCCCACAACAGCCACGTAGTCTGCGGTATGCTGGGTTTCCCTGGAGAAAAGAGAGTCAACATGGCCTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061373:ENSRNOT00000081196:3
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(41.7=72.7)
A:
NA
C2:
PF0053013=SRCR=PU(48.5=68.1)
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:
GCCGAATCTGGTTGGACAATCT
R:
AACCCAGCATACCGCAGACTA
Band lengths:
342-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]