MmuINT0091851 @ mm9
Intron Retention
Gene
ENSMUSG00000000693 | Loxl3
Description
lysyl oxidase-like 3 [Source:MGI Symbol;Acc:MGI:1337004]
Coordinates
chr6:82987423-82988603:+
Coord C1 exon
chr6:82987423-82987586
Coord A exon
chr6:82987587-82988388
Coord C2 exon
chr6:82988389-82988603
Length
802 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGC
5' ss Score
3.9
3' ss Seq
CTGCTCTGGTCCCATCTCAGGTG
3' ss Score
8.34
Exon sequences
Seq C1 exon
GCCGAATCTGGTTGGACAATCTGAGCTGCAGGGGGACTGAAGGAAGTGTGACAGAATGCGCCTCTCGGGGCTGGGGAAACAGTGACTGTACCCATGATGAGGATGCCGGGGTCATCTGCAAGGACCAGCGCCTTCCCGGTTTCTCAGACTCCAACGTCATTGAG
Seq A exon
GTCTGCAGTACACACTTGTGCATGTGCACTCACGCACGCGCGCGTGCACACACACACACACACACACACACACACACACACACGGCTGCCAAGTGCCATATGTGATTAGAAGAGATATCATATAAGGATCCCATAAGCCTTTATAGGATAATGTGGATTTCTGGGACACTTGGAAAGTGGGGGGGGGAGTACTGCACTGTAAAATCCAATTTTTTAAAATGTGTATGGGTGTTTTGCAGTCATATATGTCTGTGTACCCCGTGTATGCCTAGTGAAGAGAGGCCAGATGAGGGCACTGGATCTTATGGAACTGGAGTTTCTGAAGGTTGTGAGCTGCCATGTGGGTCCTGGGAATTGAACCTCAGGTCTTCAGGAAGAGTTCTAGCCCTCGAATCCATTCATTTCAAGTATTCACATTAAATTACTAAACCTGGCATGCGCTCTCTAGTTTCACTCCTGTTCACCTGTCCCTCTCCTCCCAGGTTTCTGCGCTCTGCCAATGTCTTTCTTCCTCCTCTTCCTGAGACACTTCCATTGTAAAGGTTGCCTCATGCTTCAGGCAGACTTATTATAGCTTCCCTCAGTGCCTTCGGACCCTGTGATTATGTCTCGAACATAGCATATTCTGCCACCGCTACACACTGCACTCTGGGGCACATCCTCCACACAGGCAGCTTGGCCTGGCATCCTCAGCCCTGTCTCAGTGGTCACACCGTTGGGTTTTACAGACACAATCAGGGCTCCTTCGAGGCTGCACAGTATTGCTACTGTGATTCTTTCCCCTGCTCTGGTCCCATCTCAG
Seq C2 exon
GTGGAGCATCAGTTGCAAGTGGAGGAGGTGCGACTCCGACCTGCGGTGGAGTGGGGAAGGAGACCCCTGCCTGTGACTGAGGGCCTGGTTGAAGTCAGGCTTCCTGAAGGCTGGTCGCAAGTGTGTGACAAAGGCTGGAGTGCCCACAACAGCCACGTAGTCTGCGGTATGCTGGGCTTCCCCGGAGAAAAGAGAGTCAACATGGCCTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000693-Loxl3:NM_013586:3
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(41.7=72.7)
A:
NA
C2:
PF0053013=SRCR=PU(48.5=68.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTGGACAATCTGAGCTGCA
R:
CTCTCTTTTCTCCGGGGAAGC
Band lengths:
351-1153
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: