RnoINT0086052 @ rn6
Intron Retention
Gene
ENSRNOG00000016758 | Loxl2
Description
lysyl oxidase-like 2 [Source:RGD Symbol;Acc:1308435]
Coordinates
chr15:51362223-51364437:+
Coord C1 exon
chr15:51362223-51362359
Coord A exon
chr15:51362360-51364325
Coord C2 exon
chr15:51364326-51364437
Length
1966 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTGTCTTGATCCTCTCCAGGTT
3' ss Score
10.14
Exon sequences
Seq C1 exon
ACATTCAGAAGAGTTACGAGTGTGCCAACTTCGGAGAACAAGGCATCACCATGGGCTGCTGGGACATGTATCGTCATGACATTGACTGCCAGTGGATAGACATCACCGATGTGCCCCCTGGAGACTACCTGTTTCAG
Seq A exon
GTGAGGTGGGCAGAACACAGAGCTGCTGGGAGGAGGAGAAGCAGCTTCCCCAGCCTCCTTCCTGTGGATGTCCAGAAATAAGACTCATGAGGCCAGTCAGGGTGCCACACTCAGAGGCCATCATATCTGTCAAGCAATTTTCATGATGCATGTGGGCTTGAGGGACACTGAGTCTACAGGGCATGCTGAGAGCCCATGGTGCCACCCAAGATATAGAAACAGTTATATATAACTCAGTTAACCTCATGAGCCTGAAATCAAAATGTATCAGTGAGCTGACTTAGACTGAGTGAGTCAGCAGTTGGCTCTGTATACTCTGAGGCAACCCACGTCTCCAGCTTCCTCTTCAGCCACCATCCTGATTTCCTCTAGTCTTCCTACTGTTCTGTTGAGACTAAAAGCAGTTGTGTCATCCTGGGGAGGTATGATTTTCCTTCCTCTAGAGGATCTGCAAAAGGATCATTCTCCACACATGTAAATGACTCTGTAAAGCTAGAAAGTCAAATTAAGGACAACCTGGCCAGGAGACTATTTTGTGAGACCTTCCTGTAGACAGTGGTGGCCATGTGGCAGGGGAGATGCACTGTATCCCAGTGTCCTCCTGGCACATGGCTGCATTCCTGCCTACAGAGGACTCATTTCTACATAGCCTCACACGTCGCGCTTCCCGCTTGCCCTGTTGGATGGCAAAGTGTGTGACTAGAATTGGGTCATTCTGCCTTGAATCCATTCCTAGTGGGCATTCAGCCAGCCCATGGTCTAGCCCACAGTCTCTGCTGCTAGACACTCCCCTGAAGAGCCAACACCTGCAAAGAAGTAACCACAGGGTGCTTTGAAAGGTTGACTAGGCATCATCAGCTCAAAAAGTAGATAGCCAAGCACTTTCCAACCACAAGTCAAGCCCAGAGCCACAGCTGGCCCAGGAGCAGAGCTCTCTTATTTAACAAGTGGACATCCGTGGCCATGGACATGTAGACAGTGCTTGGTAGCTCATGTTGACAACTTGCTGTCCCTAGGCAGGTAAATGTGTATCTTCATATCTGCTAGAAGTGCTTAAAGGTCTCTGATAGCCCAGGCTGGCCTTTGCTCAGGCAACACATTGACTCCTTGGCTCTCCCAGTGAGGAGACACTGTTGATATATTCATGTTACAGCCAGGCAAATGCAGACCATAAGTCTCTATGTGGTTGGTGTTCTGGTCCCCTACGCTGTTTAATCATCAATGGATGGACCTACAGTTGTGCTCATGCTTCTAATGACACAGAGCTATGGATGCCTAGACTATGAGTCAACAGGACACAAGAGCTAGCCTCTGTGACAGACTGTAAGGCTTGGAAGAGAACTCCAGAAGGGAAGAAGTAGCCAGCGGTATACAGACAGGAATGGATGGGCAGACAGGTTTCTGGTGGTCCTTGCTTCATCCCTCCAGCTTCAGAGACTTGGATCCACTTCCTTCATATGCTCCTGAGCTTTGGAATCTTGGGTCTGAGTGCAGAGAGGACCGTGAAAATCACACAGCTCACCCCAGCCCTTGCTCCTGCCTTGGCCACGCCCACCCCAAGACCCTGATGTGAGCACAGGTTGTAATCTGATGCACTCATGCACATCCTTCAGGGATGCTAGAATAGACAGGAAGCTGCCTGGACCTCAGTGTGGGAGATACTGTTTACCTCATGTTGAGTGGGTGGAGCTGAGGTACAACTAAGATTTAGGGCGAAGAGAGATCAGGGAAAAATAAGGTCACCCTAGAAAGAGACATTTAACAGTTTGTCTGGACAGACAGTGCCACATGGCACATGCCCTGGGCAAGCTGTGGTTAGCAAGCCAGGCACAGGCTTTTCAGAGTGGTCCCTACTCCAGGATAGAGCATCAGACCCAGCCAAACTCTTAGGGACACCCAGCCTCTGCCCTGGGTGGAGGGCAGCCAGAAAGGCAGTTGCAGCATTCTCTGTCTTGATCCTCTCCAG
Seq C2 exon
GTTGTCATTAACCCCAACTATGAGGTGCCAGAATCAGATTTCTCTAACAACATCATGAAGTGCAGGAGCCGCTATGATGGCTACCGCATCTGGATGTACAATTGTCACGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016758:ENSRNOT00000058663:14
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATTCAGAAGAGTTACGAGTGTGC
R:
CGTGACAATTGTACATCCAGATGC
Band lengths:
246-2212
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]