MmuINT0091834 @ mm9
Intron Retention
Gene
ENSMUSG00000034205 | Loxl2
Description
lysyl oxidase-like 2 [Source:MGI Symbol;Acc:MGI:2137913]
Coordinates
chr14:70088835-70090077:+
Coord C1 exon
chr14:70088835-70088950
Coord A exon
chr14:70088951-70089940
Coord C2 exon
chr14:70089941-70090077
Length
990 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
GCTTCTCTGCCCACCTACAGACA
3' ss Score
8.11
Exon sequences
Seq C1 exon
GCACTACCACAGCATGGAAGTCTTCACTTACTATGACCTGCTGAGCCTCAACGGCACCAAGGTGGCTGAGGGCCACAAGGCCAGCTTCTGCCTGGAGGACACTGAGTGTGAGGGAG
Seq A exon
GTATGTCTGAAGGGGGAAGCTTGTGGCTTCACAGAACTTTGATCACTCCCACTGGATTGAACATGGTCCATCTGGATGGGGGGCCACACCCAATAACTCTATGTTACTTGGCCACTACTGGGTGTCCATGTGCCCTTTTTTTTTTCTTTTTGTCAACTCTTGAGGCCTTCTATGGCAACAGATTGAGGTGGGAAAAAATGGTTCTAAAATGATCTGTCCCCCTGAGCAATTCTTACTAGCAGGGAGAGGTCTATGTGGCTTCCAGGGGAGGTCTGCTCACTTGGCCTTGACTCACACGCCTCCCAGTCTGCTTGCCACGGACCATTCTTTCTGGGTGTCCCAATACCAAGCTCTTCCCCTCTAACAGCCTATAGAGGCCTGTGATGTACCCAACTTCTCTCCCTGACACCCCCCCCATCCCCCGCACACACCATTCTGCTTCTACTTTAGCTAGGGCATCACACCTTATTGTAACTGTCTGGCTTGCCACTCTGACAAACCAAGGGACAGACATTTGTCCTCTACCTATTGCCCACATGAGATTCTAGATGCCAGCATGGGCCTATAAAATCACATAGAAAAGAGGTTTTGAATGCCTGCTGTGTGCAGACAATCTGTAAGGGACCAAGAAGGCAGATCCCATAGTCCAATTGCCAGTGGTCTAGAGAAGAAAGGTGACCTCATCATAAGATAAACAATACACACAGATCACCACGACACTCATCCCTACCCCAAGGCTAAGGATTTCACAGAAATGCCAGCATAGCGCAGATTGGTCAGGGAGTACTTTGTGTAGGAAAGGACCTTGAGTCAGACTTGGGGGATGCTGGTATATAGATAGGGTATCGAGTAAGGAGGTTCCACTGAAATGAGAAGGTATCAGAACCCCATATGAGAAGGATAGGATAGATCAGGGTGGAAGGCTTGGGGATTAGAAGAGGAGGTGGGATCCGTAGTCAAGCGGTGATGTGCTTCTCTGCCCACCTACAG
Seq C2 exon
ACATTCAGAAGAGTTACGAGTGTGCCAACTTTGGAGAACAAGGCATCACCATGGGCTGCTGGGACATGTACCGTCATGACATTGACTGCCAGTGGATAGACATCACCGATGTGCCCCCTGGAGACTACCTGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034205-Loxl2:NM_033325:11
Average complexity
IR-S
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAGCATGGAAGTCTTCACT
R:
GAACAGGTAGTCTCCAGGGGG
Band lengths:
243-1233
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: