MmuINT0091849 @ mm9
Intron Retention
Gene
ENSMUSG00000000693 | Loxl3
Description
lysyl oxidase-like 3 [Source:MGI Symbol;Acc:MGI:1337004]
Coordinates
chr6:83000552-83002558:+
Coord C1 exon
chr6:83000552-83000663
Coord A exon
chr6:83000664-83000793
Coord C2 exon
chr6:83000794-83002558
Length
130 bp
Sequences
Splice sites
5' ss Seq
TCGGTAGGT
5' ss Score
9.09
3' ss Seq
AGTGCCTGTCTATTCTGCAGGTG
3' ss Score
9.13
Exon sequences
Seq C1 exon
GTCGTTATCAACCCAAATTTTGAGGTAGCAGAAAGTGACTTCACCAACAATGCAATGAAGTGTAACTGCAAATACGACGGGCATCGCATCTGGGTGCACAACTGCCACATCG
Seq A exon
GTAGGTAACAGATGAGATGGGTGAATGCAGGGCAGGAGGGAAAGGCTTCCATGCTGTCACTGCCCATGATGGGTGTGTGCTCTTGCCTCTGTGCAGGGACAGCCCCTCACAGTGCCTGTCTATTCTGCAG
Seq C2 exon
GTGATGCCTTCAGCGAAGAAGCCAACAGGAGGTTTGAGCGCTACCCTGGCCAGACTAGTAACCAGATCGTCTAAAATGCTACCACCCTCTCTGTAAACCACCACTGGCCCCCAATGGCAGGGGTCTGAGGCTGCCATTACCTCAGGAGCTTACCACAAGAACCCCTGATGTCAGCAGGCGCCCTACACTCAACCACCTGTGCACTACAGGCAACAAACTGTCAAACAGAAGTTGGTGCCTCCTTTACGGGGTCAGCTGTCATTACCTTTGGCCAACAAGCATGGAGAATCAGCCAACAGCCCCAGCAACAGACAGAACACACCACAAAGAACTGCCCCACACAGGATGGCAGCAGCTCATTCTCTTGAATAGGGGAGGTCAAGAGGGTCAGCTCCCATCGCTCTCCGTTCTCCTAAGGACCGCGTTACCTCTAGCCATTTGGTGGGGGAGAAGATCCAACCCCCACTTTTGACTGTAACATGTTGCTAGGTATAATTTTATTTTATATAAAATGTGTTCTTCGGAGCCCAGGACTGATGCAGCGGTTAGAGGGACTTGCCCTCCGCAGGTTCACTGACTCCTCCTCTACCCACATGCACTCAGAACCTAGGCTAGGAAAGCAAGGAGGAGATCAGGGCAAGAGCTTCACACTCTTGCCGGTCCAGTCATTCATTCTGTGACCTCGGGGGTCACATATAAGGTCAGTGTCTCTGATCCGCGCCGGATCCGCACTGCCAGCTGTGATTGGGTTCGAACAGCTTCATAAACATCTTCAGCATTTTGTGCCAATTTCTCCCCAATGGCCAAGATCACATCACCAGGCCGCAGACCAGCCCTGTGGAGGATGGACGGGGCAAGGAGAGAATAGACAGAGAAGTTCAAGGATACATCCACCCATCCCATCCCACCCAACCCCCCCCCCCAGAGCACGCTCCCCATCACCTGTGTGCGGGGGAGCCCAGGATAACTTTATGAATGAGGACACCATGCTGAACATCAGGGAAGCTTGGCTCACGGAGCTGTAGTTCAATAAGGATGCTGAAAGGGCACAGACACTATTAGCTCCACACAGGCCCTCTCCCATCTTAATAGTTCACCTTCTGCCTTCTAGAGCTTAGGAAGTGGGATATACACATAAAAGATAGCTAATTTCGAAAGATACATGGTGTTGATCAACTTCACTTCTGTCATCCTGAAGGGTTAGAACTTAAGCTGAGCCTAGAAGGGTGGGTCCTACCACCTTACGAAATAAGGTATTGAGACATAGAAGTGGAAAATGAAAGTAGTTCCGAAGAAACGGCAAGCTGTCTGGAAGGATAACGAGATGGGTGGGAATGGGCGGGAATGGGCCTCCAGTGCTAGGTCAATGTTGGCTTTACATCACAGCAATAGCAGGATGTACTCAATCTACTGAAAGATCCAGATGCAGTGGGATGAGAAAGTTATGAGAGGGAACAGTGCTTGTGACAGAAGACAACAGCTTATCTTAGGAAAAAACAGACATGAGAGAAAACCCAAGAAAAGGATAGGGTGTGTGTATGGTGTGTGTGTAGGGGTGTGTGTGTGTATGTATGTATAGGTGTATATATATATACATATATATAGATATATGTATATATCACCACACTAACATACATATATATGTATATGTATATATCACCACACTAACATACCTGGGAGTCAGGGTCAGCATCATCACTCCAATGTAGCGGCGCTGGGACCCACTGGTTCCAAACCAGGAATCTGTAATAAAAGAGGACAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000693-Loxl3:NM_013586:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0118612=Lysyl_oxidase=FE(18.1=100),PF077056=CARDB=PD(45.2=50.0)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PD(1.0=8.0)
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:
AACTGCAAATACGACGGGCAT
R:
GCACAGGTGGTTGAGTGTAGG
Band lengths:
251-381
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: