RnoINT0086085 @ rn6
Intron Retention
Gene
ENSRNOG00000015727 | Loxl4
Description
lysyl oxidase-like 4 [Source:RGD Symbol;Acc:1308588]
Coordinates
chr1:261844023-261844871:-
Coord C1 exon
chr1:261844717-261844871
Coord A exon
chr1:261844191-261844716
Coord C2 exon
chr1:261844023-261844190
Length
526 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CGCGACTCTGACTATTACAGGTG
3' ss Score
8.02
Exon sequences
Seq C1 exon
GGCTAGGGCCCATCCACCTGAGTGAAGTGCGCTGCAGGGGCTATGAGCAGACCATCGGCGACTGCCTTGCCCTAGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGACGCTGCTGTCAGGTGCAACATCCCTGACATGGGCTTCCAGAACAAG
Seq A exon
GTGGGTGTAGGTCTGAATGTTCTCAGGCAGGGGTCTGGGCTGGCCCGAAGAGCTCCCTTCTCTCTGTGACTTGTCCCCACATATAGTCCCACAGATGGCAGAGGGACATGGGGCTTCGCTGGTATACAAACTGGTGCATACTCACTCAGGTCCTGAGAAAAGCGGGGAAAGAAGGCGCATCAAGCCAGGACTACCAGCAAACAGTGTTGGCGAGGGGCTCTGGCCATGGTGGGCAAGTTGCTGGTATCTTGAAAAATGGTGTTGTCTCTCTAATGGGATGCCCAGTCAACAAGGTGGCAGATCCCAATGCCCTGGACAAACTGAGTCACTGCTAATAGTGGGAGAGGCTAAGTAGGAGGGCAAGGTCCAGGGCAGAAGCTCCTGCCACAGACAAATTTTTCTAGCAAGTGGGGACATCACACACTAGCTATTGAGCTAAGCTCACATTACAGGAGTTGAGAGAGCCTGGCCGGTCTCCCGGCTTGCAGCCCTGGCTTCTCCCCTTACGCGACTCTGACTATTACAG
Seq C2 exon
GTGCGCTTGGCTGGTGGGCGCAACTCGGAAGAGGGCGTGGTGGAGGTGCAGGTGGAGGTGAATGGGGTCCCACGCTGGGGGACTGTATGCAGTGACCACTGGGGGCTCACTGAAGCCATGGTGACCTGTCGGCAACTCGGTCTGGGATTTGCCAACTTTGCTATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015727:ENSRNOT00000021144:8
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:
CTAGGGCCCATCCACCTGAG
R:
GATAGCAAAGTTGGCAAATCCCA
Band lengths:
318-844
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]