MmuINT0091861 @ mm10
Intron Retention
Gene
ENSMUSG00000025185 | Loxl4
Description
lysyl oxidase-like 4 [Source:MGI Symbol;Acc:MGI:1914823]
Coordinates
chr19:42598701-42600120:-
Coord C1 exon
chr19:42599877-42600120
Coord A exon
chr19:42598817-42599876
Coord C2 exon
chr19:42598701-42598816
Length
1060 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
CAGCTCTCCTCCTTCCTCAGGCA
3' ss Score
7.74
Exon sequences
Seq C1 exon
GTGCTCCAGACCTCGTGATGAACGCCCAGCTGGTACAAGAGACGGCGTACTTGGAGGATCGTCCACTCAGCATGCTGTACTGTGCTCACGAGGAAAACTGCCTTTCCAAGTCCGCTGATCACATGGACTGGCCCTACGGGTACCGGCGCTTGCTGCGCTTCTCCTCACAGATCTACAACCTTGGCCGGGCCGACTTCCGTCCCAAGGCTGGACGCCACAGCTGGATTTGGCACCAGTGCCACAG
Seq A exon
GTTGGTACCAGCTTATACTTGGCTCTAGAGGGTTAGGGACTAAACAGTTTGGTTTCCTCTGGCCTCAGGCAAAATCCTGGTTAAGTCTGACTTTCTAGGCACTTGGCTGGGCCTGCCCCAGGAGACAAGAGGATCCCTGAAGCACCTACCTGTGCCCTACAATGTATATCCATCTCCAATCTTTGGCTATACCCTTGTGGATGGTGCTTATGGGGCCAGTTGTGCTTGATTGCCAGTGTTGGTCTCTGCTAGCATGGTATTACATATTTTTCCTATACTGGACTTAGGCAGCCCCTGTCAAGTCGTGGGGACTCCAGAAGTGTGGAGACACAAAACAGGATGCTTGCGCAGCAGAGAAGGTTGGCAGGTTCCTGCAGTGACAAGGCGAAGCAGGGAATGGCAGGGAACCGACTGGTATGGAAGGAGACAATGAGCATCCTTTCTTGTAAGGAACCCGCAGACCAGAAAGGAGAGGCAATGCCTGTGACGGAGGAAGAGTGGAAGGGGAAATGTCTTATTTTCTTTCAGGACATAGATGTGCAACAGGGAAAGCTGAGAGGAATGGGCAGCGATTTGAGGACTTGGCCTTGCCTGAGTTAATAAGCACCTTTTCCTGTAGCATGCACAGAGCTGTCATTACCACTGGATTGGAAAATATGGTAGCAATTTGGTCCCAGGCTGATGCAGCACAATAAACTCTCTCCCTAGCTTCTTCACTACTTAGGCCACCTCTGGGCCAGTGCGTCCCCGCCCACCTCTGTCTTGGATCCTACAGCCCAGGTCCCAGCCTTCTGAAGGCCACCAGGGGCAGTTTGTACCTCTTCTATCTGAATTAAGATTCCAAGTAGAGGGGATGGCTGTGCCTTGCTGCCTGGCAGGGATGACAGCAAAGAAGTCTGTGACCATGCTCATCTTGGACTTAGGAGGAAGGGCGGGCACTGCCCTGTTATTACAGCTTTCCCCTGTGGGTAATGATGGGCCTCACTCAGCCTCCCCTGCTACCGTCTCCTGATGACCCACTCCTATTGCTGTAGGGCTAACAGCTCTCCTCCTTCCTCAG
Seq C2 exon
GCACTACCACAGCATCGAAGTCTTCACTCATTATGACCTGCTCACGCTCAATGGCTCCAAGGTGGCCGAGGGACACAAGGCCAGCTTCTGTCTAGAAGATACAAACTGCCCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025185:ENSMUST00000026190:11
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:
PF0118612=Lysyl_oxidase=PU(38.7=96.3)
A:
NA
C2:
PF0118612=Lysyl_oxidase=FE(19.1=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:
TGCTCCAGACCTCGTGATGAA
R:
TGAGGGGCAGTTTGTATCTTCT
Band lengths:
358-1418
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