MmuINT0091866 @ mm9
Intron Retention
Gene
ENSMUSG00000025185 | Loxl4
Description
lysyl oxidase-like 4 [Source:MGI Symbol;Acc:MGI:1914823]
Coordinates
chr19:42681060-42682222:-
Coord C1 exon
chr19:42682044-42682222
Coord A exon
chr19:42681266-42682043
Coord C2 exon
chr19:42681060-42681265
Length
778 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GGTGATTCTATGCCTTGCAGGGC
3' ss Score
6.29
Exon sequences
Seq C1 exon
GTCCCATCTGGCTGGACAATGTTCGTTGTTTGGGCACCGAGAAGACCCTAGATCAGTGTGGCTCTAACGGCTGGGGTGTCAGTGACTGCAGACACTCAGAAGATGTTGGGGTGGTATGTCACCCACGGCGCCAGCACGGATATCACTCTGAGAAGGTCTCCAATGCCCTCGGGCCTCAG
Seq A exon
GTGAGGCAGCTGTCTAGGTCCCGTCCTGAGCTGAGGGCTGGATGGGGCAGAAAGCCTCCTGCAGAGTGAACCTGGAGGAAGGAGAAGCCATTCGTGCAGAGCCAGTCAGGGGACCAGACACTAGGCCTGGTGGGACCTGAGAAACTGCTCCCTGTGAAGGAGGCAGACGTGGGACTAAGGGGCTGCTTCAGCCGCAGGCTTGGCCACAATTGCTGCCTCTTCCTAGCGCAAACAACCCCAAGCTAAAAACAGCTCAAGCCAAACAACAGCAATGGGCAGGGCAGGGAGCTGGCTCCCACCCTGTGCTCGCCAGGCAGCCTCTGCCTGAGGACAGCTGGCCCTGGCACACTGGATCTGCAATGGGCCACCTTGGGGGGCTCCCCAGACTGGTTCAAGTCACCCAGGGATAGGGGTGGTGGGTCTTGAGGAACCAAGGAAACAGGAGTTGGTCCCAAGCAACTATTCTTGTGCATTTCAGTTCTTTCCAGAGTGGTACAAAGAAGACCCCTCCATGCCCAGCAAACACCTTCATCCTCCAAGGACTCTAGTCCTGTTCTCAGTTTGATAGATCCAAGGAGGGAAAGGGTCTAGACAAACCAAGACTTCAACTTCCATTTTCCCTATAGCCTTCAGCAAATGCCCCCTGCTCTCTGGGGCTGAGAATGAGAGGCAGGAAGATGATTCTAAGCCTGGCTTTCTCAGGAAAATCTGCAGTGGACTCCAGGAGTCCCAGGACCCAAGGACATGGCCTACGGTGAGGTGATTCTATGCCTTGCAG
Seq C2 exon
GGCCGGCGGCTAGAAGAGGTACGGCTGAAACCCATCCTCGCCAGTGCCAAAAGGCACAGCCCAGTGACTGAGGGGGCTGTGGAAGTACGGTACGACGGCCACTGGAGGCAGGTGTGTGACCAGGGCTGGACCATGAACAACAGCAGGGTTGTATGCGGGATGCTGGGCTTTCCCAGTCAGACATCTGTCAACAGCCACTACTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025185-Loxl4:NM_053083:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.110 A=NA C2=0.029
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(41.2=66.7)
A:
NA
C2:
PF0053013=SRCR=PU(43.2=73.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTGGACAATGTTCGTTGT
R:
CAGATGTCTGACTGGGAAAGCC
Band lengths:
358-1136
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: