MmuINT0091848 @ mm10
Intron Retention
Gene
ENSMUSG00000000693 | Loxl3
Description
lysyl oxidase-like 3 [Source:MGI Symbol;Acc:MGI:1337004]
Coordinates
chr6:83050308-83050669:+
Coord C1 exon
chr6:83050308-83050444
Coord A exon
chr6:83050445-83050557
Coord C2 exon
chr6:83050558-83050669
Length
113 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCT
5' ss Score
5.4
3' ss Seq
GCTTTCTTCCTCACTCACAGGTC
3' ss Score
10.74
Exon sequences
Seq C1 exon
ATGTCTCCAAGAGGTATGAGTGCGCCAACTTTGGAGAGCAGGGCATCACCGTGGGATGTTGGGATCTCTACAGGCATGACATTGACTGTCAGTGGATCGACATCACAGATGTGAAGCCAGGAAACTACATTCTTCAG
Seq A exon
GTGCCTAGCATCTGCCTGAGCTTTCAGATGCTGGGGTTTGGGGTGAGTGATGAGGACACCTGTGACCTGTCGGAGTGCTGCTGGGTCACACCAGCTTTCTTCCTCACTCACAG
Seq C2 exon
GTCGTTATCAACCCAAATTTTGAGGTAGCAGAAAGTGACTTCACCAACAATGCAATGAAGTGTAACTGCAAATACGACGGGCATCGCATCTGGGTGCACAACTGCCACATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000693:ENSMUST00000000707:12
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(30.9=54.3),PF0118612=Lysyl_oxidase=FE(39.8=100)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(18.1=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:
CTCCAAGAGGTATGAGTGCGC
R:
TTGTGCACCCAGATGCGATG
Band lengths:
234-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types