MmuINT0091845 @ mm9
Intron Retention
Gene
ENSMUSG00000000693 | Loxl3
Description
lysyl oxidase-like 3 [Source:MGI Symbol;Acc:MGI:1337004]
Coordinates
chr6:82984218-82985791:+
Coord C1 exon
chr6:82984218-82984283
Coord A exon
chr6:82984284-82985448
Coord C2 exon
chr6:82985449-82985791
Length
1165 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TCTCCTTCTCTGTCCCTTAGTGC
3' ss Score
10.42
Exon sequences
Seq C1 exon
AGTCCTGAAAGTAATCTCCAGGACCAGGACTCTGCTTCCAGCCTCTGGAGTTGTGCCTAGTCGAAG
Seq A exon
GTAGGGGAGTTACTGCTGGCCAGCGGGAAGAGGAGTTGGGGATGGAGAGGATGGTGGACCAGGAGAAACGCTGATTTGGGATGGAGTCGGGAAAGCCAACCAACTGACAGTTTTATTATTGGTCAAGGAGCGAAACAGAAGAGTGGAAAGCTGAGCAAACTGTTGGGGATGGAGGCTTCAGGGTGCAATTTGCAGGCCCTACGCTGAACACCAGGGCTTCGGAGCCAAATGCCCCCAGAACAAAGCTGTCTTGTCTGAGTTGGGGGAAGCAATGGAGGGCCCCCCTTACTGTGGAGGACTGTTTTCAGCCTCGGATAGAGAAGGCCTGAGCTGGGGAGCTAGCCCTAGCTTCTGGTTGCCCAGTGACAGAAAAAGAGGTGTTCCAGGGAGCTTGGATAACTCCATACCAAACCCTGCCCAGCTTGAAGCCTAGGTCTCCTGGAGTCCCTGACCCTGCAGCATATTTGCCAGCCCATGTGCTAGGGAGGGTGGCAGAAGGTTCTCCTACTCCGGTTAGCCTCGGCCCTTCCTGCATGGGCATCTGCCCCCATAGGAAACTGAAGAGTCTTCTCATTCATAGTGCTGAGATTTCCAGGGCTGGGCTCCCAGGCTCCCCTTGCCTGTGATGCCATCTGTCTGTCTAACTGCATGGGTCTTGCTGTCATTTCTCCTGTGCCTGCACCTTGGCTTTTATTCCCTCTCCTCATGGTTTTTGCCTCTCTGTGTCATTCCCCATTACTCTGTGCTTTGGTTTTTTTGGTTTGATTAAAACCATCTATCCATATTCAATGTGTCTCTCACCCCGTGCCTTTCTGTTTTTTCCCCTTCGTTCCCACAGTCTCCCTTCCTGTCACATCCTGTCTGGGTCGTCCTCTCTGTGTCTCTTCCCAATATCTCTGTTTACCCAACCCATCCGTAGACTCTCCATCTCTAACCCATACCCACCCCATGGATGAAAGTAAATAGAGATGATGGTGTTGGTGGTAATGATGGCCAAACCAGGGAAGGTTATGGTGGGACACTAACCACAAGTTATAAGTTTTATTATTTGCAAAGGGAAAGGAGAGTCTCCCTCGCCCCCAATCTAGGTCTCTAGGGCTGTGCCTGTTTTCTTTGTGTTCCTACCCTCATTCAGTGTGTGTGTCTCTCCTTCTCTGTCCCTTAG
Seq C2 exon
TGCCCCCCTCCTTGGGCCCCACCCGCCATGAGAGCTGTCAGTGTGTGGTATTGCTGCCCATGGGGACTACTGCTGCTACACTGTCTGTGCAGCTTCAGTGTGGGGTCTCCGTCTCCTTCTATCAGCCCAGAGAAGAAGGTAGGAAGCCAGGGGCTGAGGTTCCGGCTGGCTGGCTTTCCTAGAAAGCCCTATGAAGGTCGAGTGGAGATACAGCGAGCTGGTGAATGGGGCACCATCTGTGATGATGACTTCACGCTGCAGGCTGCCCATGTCCTCTGCCGGGAGCTGGGCTTCACAGAAGCCACAGGGTGGACCCATAGTGCCAAATATGGCCCTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000693-Loxl3:NM_013586:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.009
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0053013=SRCR=PU(57.3=51.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGAGTTGTGCCTAGTCGA
R:
ATTTGGCACTATGGGTCCACC
Band lengths:
351-1516
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: