MmuINT0091853 @ mm9
Intron Retention
Gene
ENSMUSG00000000693 | Loxl3
Description
lysyl oxidase-like 3 [Source:MGI Symbol;Acc:MGI:1337004]
Coordinates
chr6:82997982-82998752:+
Coord C1 exon
chr6:82997982-82998201
Coord A exon
chr6:82998202-82998571
Coord C2 exon
chr6:82998572-82998752
Length
370 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
GGCATGTCTCTCTTCTACAGGCT
3' ss Score
9.36
Exon sequences
Seq C1 exon
GATGCTGGCCCAGAAGAAGCAACACTCCTTTGGTCTGCACAGTGTGGCATGTGTGGGCACAGAAGCCCACCTCTCCCTTTGCTCTCTAGAGTTCTATCGTGCCAATGACACCACCAGGTGCTCTGGGGGAAACCCTGCAGTGGTGAGCTGTGTGCTGGGCCCTCTTTATGCCACCTTTACTGGTCAGAAGAAGCAGCAACACTCTAAGCCTCAAGGGGAG
Seq A exon
GTATGTAAGACAAGTTTTCATTCAGCAGTACTGGGGATTTGAACCTCAGGCTTCACACACACACACACACACACACACACACACACACACGGCAAACTTACCTTTCAGTTACACACTCCCACCCAAGACAGTAAATGTGACCTTTCTCCACCCAGGGTGGGAATTCCCTAGCCCGGTCTCTAGTTAATAAGCAAGCCTTGACCTTTGAAGACAAGGAACCTTCCAGTGGCTGTGCCATAGATCTGATGCCACCCACTATCATAAAAACCTCATTCAGCTCTCCGGACTACTTAAACCAACAATCTCCCTGGTCTTCCCAAATCAATGTTTCCACTCATCTCTTTGGGCATGGCATGTCTCTCTTCTACAG
Seq C2 exon
GCTCGTGTGCGTCTAAAGGGTGGTGCCCACCAGGGAGAAGGCAGAGTGGAAGTCCTGAAGGCTGGCACATGGGGAACAGTCTGTGACCGAAAGTGGGACCTGCAGGCAGCCAGTGTGGTGTGTCGAGAACTGGGCTTTGGCACTGCCCGAGAGGCCCTGAGTGGTGCCCGCATGGGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000693-Loxl3:NM_013586:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.149 A=NA C2=0.126
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(50.5=68.9)
A:
NA
C2:
PF0053013=SRCR=PU(67.9=90.2),PF0118612=Lysyl_oxidase=PU(23.9=44.3)
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:
AGCAACACTCCTTTGGTCTGC
R:
CAAAGCCCAGTTCTCGACACA
Band lengths:
342-712
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: