MmuINT0091847 @ mm9
Intron Retention
Gene
ENSMUSG00000000693 | Loxl3
Description
lysyl oxidase-like 3 [Source:MGI Symbol;Acc:MGI:1337004]
Coordinates
chr6:83000110-83000438:+
Coord C1 exon
chr6:83000110-83000225
Coord A exon
chr6:83000226-83000301
Coord C2 exon
chr6:83000302-83000438
Length
76 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
ACATCTAACACTTCCTTCAGATG
3' ss Score
7.7
Exon sequences
Seq C1 exon
GCATTACCACAGTATGGACATCTTCACTCATTATGATATCCTGACCCCCAATGGCACCAAGGTGGCTGAGGGCCACAAAGCTAGTTTCTGTCTAGAAGACACTGAGTGTCAAGAGG
Seq A exon
GTGAGTTGGGGACAGAGTGGCCTTAAGCCCAAGCATGGCCTTGCCGCCCTTCCCTGACATCTAACACTTCCTTCAG
Seq C2 exon
ATGTCTCCAAGAGGTATGAGTGCGCCAACTTTGGAGAGCAGGGCATCACCGTGGGATGTTGGGATCTCTACAGGCATGACATTGACTGTCAGTGGATCGACATCACAGATGTGAAGCCAGGAAACTACATTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000693-Loxl3:NM_013586:11
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:
PF0118612=Lysyl_oxidase=FE(19.1=100)
A:
NA
C2:
PF0053013=SRCR=PD(30.9=54.3),PF0118612=Lysyl_oxidase=FE(39.8=100),PF077056=CARDB=PU(50.0=45.7)
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:
ATATCCTGACCCCCAATGGCA
R:
TGTCGATCCACTGACAGTCAA
Band lengths:
183-259
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: