MmuINT0091869 @ mm9
Intron Retention
Gene
ENSMUSG00000025185 | Loxl4
Description
lysyl oxidase-like 4 [Source:MGI Symbol;Acc:MGI:1914823]
Coordinates
chr19:42678345-42678805:-
Coord C1 exon
chr19:42678622-42678805
Coord A exon
chr19:42678500-42678621
Coord C2 exon
chr19:42678345-42678499
Length
122 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CAGTACACTCTTCCCTGCAGGGC
3' ss Score
7.93
Exon sequences
Seq C1 exon
GAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGTCAAG
Seq A exon
GTGAGCAAAGAGGTTTGGGGTGTCTAAGAGGGCCCGGATGTACCACGAGTTCCCTCCTCAGGGAGAGGAAGTCGCAGCTGTGGTTTACAGAGGAGCCTCACCCAGTACACTCTTCCCTGCAG
Seq C2 exon
GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025185-Loxl4:NM_053083:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(56.1=88.7)
A:
NA
C2:
PF0053013=SRCR=PD(42.9=80.8)
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:
TGTGGAAGTGCTCATGAACCG
R:
GCGTCGTTTGCATGTTGACAA
Band lengths:
249-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: