MmuINT0091855 @ mm9
Intron Retention
Gene
ENSMUSG00000000693 | Loxl3
Description
lysyl oxidase-like 3 [Source:MGI Symbol;Acc:MGI:1337004]
Coordinates
chr6:82998863-82999345:+
Coord C1 exon
chr6:82998863-82999017
Coord A exon
chr6:82999018-82999177
Coord C2 exon
chr6:82999178-82999345
Length
160 bp
Sequences
Splice sites
5' ss Seq
AAGGTCATT
5' ss Score
4.32
3' ss Seq
TCCCCTCTATACCTCTACAGATC
3' ss Score
10.3
Exon sequences
Seq C1 exon
GCATGGGTGCCATCCACTTGAGTGAAGTTCGGTGCTCTGGCCAGGAGCCCTCCCTTTGGAGATGCCCGTCCAAGAACATCACAGCTGAGGACTGTTCCCACAGCCAGGATGCGGGTGTCCGGTGCAACCTCCCCTACACTGGGGTGGAGACCAAG
Seq A exon
GTCATTCAGACATTCTACTTTAGGTCTTTCTACTCAGGCCCGGACATCCCTCAGCTCCCACACAGCCCTGCCATCTGTGAGCCCTTTCTCTGTCCCTGCTCCCTGCTCCAGACTGCCATCCCCAAAGATCCCCCTGCACCTCCCCTCTATACCTCTACAG
Seq C2 exon
ATCCGACTCAGTGGGGGCCGCAGCCGGTATGAAGGGCGAGTCGAGGTGCAAATAGGGATACCTGGGCATCTACGCTGGGGCCTCATCTGTGGGGATGACTGGGGAACCCTGGAGGCCATGGTGGCCTGTAGGCAACTTGGTCTTGGCTACGCCAACCACGGCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000693-Loxl3:NM_013586:7
Average complexity
IR-S
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:
PF0053013=SRCR=PD(42.9=80.8)
A:
NA
C2:
PF0053013=SRCR=PU(49.1=92.9)
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:
CTTTGGAGATGCCCGTCCAAG
R:
GCCAAGACCAAGTTGCCTACA
Band lengths:
249-409
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: