RnoINT0086051 @ rn6
Intron Retention
Gene
ENSRNOG00000016758 | Loxl2
Description
lysyl oxidase-like 2 [Source:RGD Symbol;Acc:1308435]
Coordinates
chr15:51361012-51362359:+
Coord C1 exon
chr15:51361012-51361127
Coord A exon
chr15:51361128-51362222
Coord C2 exon
chr15:51362223-51362359
Length
1095 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TCTTCTCTGCTCACCTACAGACA
3' ss Score
9.29
Exon sequences
Seq C1 exon
GCACTACCACAGCATGGAAGTATTCACTTACTATGACCTCCTGAGCCTCAACGGCACCAAGGTGGCTGAGGGCCACAAGGCCAGCTTCTGCTTGGAGGACACTGAGTGTGAGGGAG
Seq A exon
GTATGTTTGAAGGGGGAAGGTTGGGGCTTCACAGAACTTTGACCACTCCCACTGTATTGAACACAGTCCACCTGGATGGGAGGCAGGCCCAACAACTAATTACACCACTCTGGGCACTACTGGGGGTTCATGTGGCCTCCCCCCGCCCCCCAGAGCAATGCTCACTAGTAGGGAGAGGGTTGTGTGGCTTCCAGGTGAGGTCTGCGCACTTGGCCTTGACTCACATGCCTCCCTGTCTGCTTGCCACGGACAATTCTTCCTGGGTATCCCAATACCAATCTCTTCTCCTCTAACAGCCTATAGAGCCCTGTGATGCATCCAACTTCTCTCCCTGACCCCCCTGCACACACCATTCTCTGGTAGGTCATCATACCTTACTGTAGTTGCCTAGCTTGCCACTCTGACACACCAAGGGACAGACATTTGTCCTCTACCTATCACCCACATGAGGTTCTAGATGCTGGCATGGGCCCATAAAATCATATAAGCAAAGAGGTTTTGAAGCCTACTATGTGCAGACAGTCTATGAGGGACAAGGAAGGCAGATCAGATATGAGCCTGTAGTCCAATTGCCAATGGTCTAGAGAAGAAAGATGAGGTGACCTCATGTTAAGATAAACCATGGAGGGATGGCTCAGTGGTTAAGAGCAGTGACCACTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCATATGGTGGCTCACCACCATCTGTAATGATCCGATACCCTCTTCCGGTGTGTCTGAAGACAGCTACTACATATATATCTCACAAATCTTTTTTTAAAAAAGATAAATGGTAAACACAGATCACTACAACACTCATCCCTACTGCAGGCTAAGGATTTCACAGAAATGCCAGCATAGTCCAGATCAGTCAGGGAACGCTTTGTGGAGGAAAGGACCTTGAGCCAGACTTGGAGGGGATGCTAGCATATAGATAGGGAATTTTGCAAGAGGGTTCTGCTGAAATGAGAAGGTATCAGAAACCCACATGAGATGGCTGGGGTAGATCAGGGTGGGAGGCTTGGTGATTCGAAGAGGAGGTGGGGACTGTAGTCATGTGATGATGCTCTTCTCTGCTCACCTACAG
Seq C2 exon
ACATTCAGAAGAGTTACGAGTGTGCCAACTTCGGAGAACAAGGCATCACCATGGGCTGCTGGGACATGTATCGTCATGACATTGACTGCCAGTGGATAGACATCACCGATGTGCCCCCTGGAGACTACCTGTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016758:ENSRNOT00000058663:13
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(19.1=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(22.1=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:
CACAGCATGGAAGTATTCACTTACT
R:
CTGAAACAGGTAGTCTCCAGGG
Band lengths:
246-1341
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]