MmuINT0091867 @ mm9
Intron Retention
Gene
ENSMUSG00000025185 | Loxl4
Description
lysyl oxidase-like 4 [Source:MGI Symbol;Acc:MGI:1914823]
Coordinates
chr19:42679736-42681265:-
Coord C1 exon
chr19:42681060-42681265
Coord A exon
chr19:42679775-42681059
Coord C2 exon
chr19:42679736-42679774
Length
1285 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
ATCTGTTTTCTCTGTCACAGAAA
3' ss Score
10.03
Exon sequences
Seq C1 exon
GGCCGGCGGCTAGAAGAGGTACGGCTGAAACCCATCCTCGCCAGTGCCAAAAGGCACAGCCCAGTGACTGAGGGGGCTGTGGAAGTACGGTACGACGGCCACTGGAGGCAGGTGTGTGACCAGGGCTGGACCATGAACAACAGCAGGGTTGTATGCGGGATGCTGGGCTTTCCCAGTCAGACATCTGTCAACAGCCACTACTACAG
Seq A exon
GTAGGTGGGGCAGGACTGCCAAGTTGGACCAACTTATGTGTCTGTGAGTACCTGTGCGTGGGTGCATGCGTGGTTGCGAATGTGTAGGATGTAAACCTTAAAGAGTTGCTCGTGTTTCTGTGTGTGTGTGTCGTGCGCAAGCACATGCACGCACTCTATAAATGCGCATGCGCAGTGTTGAATGGCTCGGTGAGATTCTGGAGGGACGCATTTCCATTTCATTGCTTTCATTGTATCCCACCGTCAGTTCTTTCTATTGGGTTGGCAAGTGTGATGTTTACTTTCTGGCCACTTCCAGATGATTCTCAGGACCTTGTAGTTCCTACAGTGTGGCCCATCCGGGGCAAGAAGTAGCCAAATCAAGGAGTAGCCCTGGGCCTTGGTTGGGGTACATGGCCCTCAACCACCCTCTGCTACAACTCAGTGCTGTCCAGGGAACTCCTGCTCTGACCCAAGCTGGACTATAATTGGGTCGTATGCAAGCTAGACCTGGGTGGGGAGTTTGGGTAAAGGAGACATAAAAATACTCTCAGAAATGTGACCAAACTGTCACAGAAGATCCCACCAGCTCCATAAACAACCACCACAACCCCAGTTCCACCAGCTGTGTCAGAGACAGCCTCAAACATTTCTCAAGACATCTCAAGGCACCTCTAACTCCTCTAGCCTGCCCCACCCCTACTGGGTTGCCACGTGTCTGTCTTCTAGGCAGTTAAGTCCCTTGCCTCTGGCCTAGAGGACTGCGATTCTGAATAAAGGGCAGGCATGTGACACTATCTGTGGGGATGAGGGGGACATGATCACCTGGCTCCTCAATACCTAGTAATTGCAAGTCAGACCCTGCTGATTTACCTCCCTTCAGTAGGACAGTCCTGGTTACAGCCTGGGTGGCAGCCTCCCCCCTCCCAATAAAGCCCCCGACTTCCAGGTGACCTTTCCCAAGTCTCTCCTCCCAGGTAACCCCTAAAGGACCCTGTCATCTGGATTTAGGGGCTCGGGGGAAGGCAAGAATGAGTTACTAACTCCATGGCAACCCCAGTGCAGTGGAGACTGTAGGGTGAGCTGAGGGAGCTTGCTTGCCTTCTCTGTAAAGTGGAAGAGCAGCCATCCCTATCTGTGGGGTGGACATCCCATCAGGCTCCTAAACATCTTGGTATTGAAGTAAGAGCTGAGAAAACATCTATAAGCTATGAAGTCTGCTATGAACTTCGGAACTGAGGAACCAAGGTGGGAGGGCAAGGAGAGTTCTTGCACCCCTTCACCCTATCTGTTTTCTCTGTCACAG
Seq C2 exon
AAAAGTCTGGAATCTGAAGATGAAGGATCCCAAGTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025185-Loxl4:NM_053083:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.214
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(43.2=73.9)
A:
NA
C2:
PF0053013=SRCR=FE(11.0=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:
GGCTAGAAGAGGTACGGCTGA
R:
CTAGACTTGGGATCCTTCATCTTCA
Band lengths:
238-1523
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: