MmuINT1022345 @ mm10
Intron Retention
Gene
ENSMUSG00000025185 | Loxl4
Description
lysyl oxidase-like 4 [Source:MGI Symbol;Acc:MGI:1914823]
Coordinates
chr19:42604132-42605026:-
Coord C1 exon
chr19:42604807-42605026
Coord A exon
chr19:42604316-42604806
Coord C2 exon
chr19:42604132-42604315
Length
491 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
GGTTCTCTCCCCTTCAGCAGGAG
3' ss Score
5.8
Exon sequences
Seq C1 exon
GCTCAACAGCCTGACAAAAAAGAATTCCTTCTGGATTCACCGGGTTGACTGTCTGGGGACAGAGCCCCACTTGGCCAAGTGCCAGGTACAGGTGGCTCCAGGAAGGGGCAAGCTTCGGCCAGCCTGTCCAGGCGGCATGCACGCTGTGGTCAGCTGTGTGGCAGGGCCCCACTTCCGCCGACAGAAGCCAAAGCCGACGCGCAAGGAGTCCCATGCAGAG
Seq A exon
GTCAGCCCCCAGGGTCCTGACCAATCTGCAGGTGCAGATCCCGCCCAGCAGTGCCCTGCTCAGTGGGGTAGAGGAGAGAGGAGCCATAAGGGGGGGGAGGAGCTGGACTCCTTGGGAAGTTTTTTTTTTTTTAAAGGAGGTCATTTATCATCCTCCCATAGATGGAAAGTTGACATTATTTGCCATGGATAGAAGGCAACCGTGAAAAGAGTAATTAAATTGTAGCTGCAACCCACTGAGGGTGAAGGCACTGAACCCAAGCCTGGTCTTTTTAAAAAGTAGGTGAGAGCGCTAGTGAGCCCCGCTGCCAACACGCACACGCACACGCACACGCACACTCACACTCACACCAGTGAAGAAGCAGAGGTTTAGAGTTAGTTGTGGGAAGCCAAAGACAGAATTGGAACCTAGGCTTTGCCTCTGGCCGGTGAAGCTTACAGGAGCCCCTCCCTGAGGTCCACCCCTGAAGCCGGTTCTCTCCCCTTCAGCAG
Seq C2 exon
GAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025185:ENSMUST00000026190:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.099
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(44.9=71.6)
A:
NA
C2:
PF0053013=SRCR=PU(56.1=88.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCTGGATTCACCGGGTTG
R:
CAGAGCCAAAGCCAAGCTGG
Band lengths:
342-833
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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