MmuINT0091856 @ mm10
Intron Retention
Gene
ENSMUSG00000000693 | Loxl3
Description
lysyl oxidase-like 3 [Source:MGI Symbol;Acc:MGI:1337004]
Coordinates
chr6:83049184-83049646:+
Coord C1 exon
chr6:83049184-83049351
Coord A exon
chr6:83049352-83049483
Coord C2 exon
chr6:83049484-83049646
Length
132 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ACTCCTCCCTACATCCCCAGGAG
3' ss Score
9.3
Exon sequences
Seq C1 exon
ATCCGACTCAGTGGGGGCCGCAGCCGGTATGAAGGGCGAGTCGAGGTGCAAATAGGGATACCTGGGCATCTACGCTGGGGCCTCATCTGTGGGGATGACTGGGGAACCCTGGAGGCCATGGTGGCCTGTAGGCAACTTGGTCTTGGCTACGCCAACCACGGCCTGCAG
Seq A exon
GTAAGCAGGGAGAAAAGGGAACTTTTGGTTGTCACCAAAGTCTGTGTTTTGGGCAAGGACTGTGGAAACACATCCCTTGGCCCTGGAAACTGGAACCTATAACCTCACTGGAACTCCTCCCTACATCCCCAG
Seq C2 exon
GAGACCTGGTACTGGGACTCAGGGAATGTAACTGAGGTGGTGATGAGCGGAGTGCGTTGCACGGGGTCTGAGCTGTCCCTGAACCAGTGTGCCCATCACAGCAGCCACATCACCTGCAAGAAGACGGGAACCCGCTTCACTGCGGGGGTCATCTGTTCTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000693:ENSMUST00000000707:8
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=PU(49.1=92.9)
A:
NA
C2:
PF0053013=SRCR=PD(49.1=94.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGTCGAGGTGCAAATAGGG
R:
CTTCTTGCAGGTGATGTGGCT
Band lengths:
255-387
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