MmuINT0091839 @ mm10
Intron Retention
Gene
ENSMUSG00000034205 | Loxl2
Description
lysyl oxidase-like 2 [Source:MGI Symbol;Acc:MGI:2137913]
Coordinates
chr14:69660639-69664122:+
Coord C1 exon
chr14:69660639-69660850
Coord A exon
chr14:69660851-69663899
Coord C2 exon
chr14:69663900-69664122
Length
3049 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGA
5' ss Score
5.17
3' ss Seq
ACACTTCCCTTTCCCTGCAGAAC
3' ss Score
12.28
Exon sequences
Seq C1 exon
AGCCTAAATATACAGGTGGAAGACATCCGGATTCGGCCCATCCTTTCTGCCTTTCGCCATCGCAAGCCTGTGACAGAGGGCTACGTGGAGGTGAAGGAGGGCAAGGCTTGGAAGCAGATCTGCAACAAACACTGGACAGCCAAGAATTCCCACGTGGTCTGTGGCATGTTCGGCTTCCCTGCAGAGAAGACCTACAACCCCAAAGCCTATAA
Seq A exon
GTAAGAGGGGAGAACCAGTTGGGGCGGGGCTTCCTATTCTTGTGGTGTCAGTACAGTCCTAGTGAGGGCCCATTTCACTGCCTGCTTAGCCTTGCTTCTAAGTAACTCACTCCTGAGGGGAGCAAGAGAGATGATGGATCTAATGCAGCTTATAGGAAGGCTTACCCATAAGGCACCAAGTGCTCCAGCCCAGGGAAATCCCACCGTTAGTTCCAGCAGCCACTGGGGAATGTATAGACTCTGTAAGCGCAATACATAGGTTGTCCAAGGAGAGTTTTAGCTAAAGTTCATCTCACGTGGACCCAATAGACTCCTATCCCTTTCTTGGGTAATTTTTCCCCAGGTTTAGAAAGTATAGCTGGATCAGACACACTGAGCCCCTGGCAGGCTCTCACAAAATCGAGCTTTCCCTTGGCTGGGGAGAAGCCACTGGGACTCTCTATGCTTCAACAGCAACTCAAACTCATTAACTGCTGCAGCCCTGCTGGCTTCCAGCTTGGCAGAAGGCTGTCCCTAACCTCAGTCATCCAGGCCTGGGGGCGGCCGGTGCTTCCCTTCCCCTCACTACATCTCTTGATTCTCTTGGGCCAGCTCAGCCAATACATGAGTAACTAAGATGGAGATGGGGGTGGGGTGGTGCTCAGGCAGCTGGATGCCTGTGGAGGGTCCTGGTGGGAGGCACATTCCTGAGAGCTGATGTAAGACAGAAGCAGGGCTGTCTGGGGGAAGACTGGACAGGTCTGAGGCAGCCCTATATGCCGGGTGAGAGAGGGTGGTGCTCACCAACAGCTGGAAACAGATGGGCTTTCCTAAGCCAGCGGTGGGTTCAGTGTGCTCTGACCTGGAACAGCTAATGCTCCCCTGAGCGTATTCTCCGGCACATGTGTGGAAGGGGGGTGAGGTTTCTCAGTGCTAGGGGCCTCACAGGAAGTGGGGAGGGGGAGCTGCACTGGAATTAATAACAGCCCCCTTGTAGGCATCTCTACTGTATGATGTCATTGTGGTGAACACACATCCTGAACTATCAGATATACTGTGTATTTTAGATATTTGAGTGCTTGTACCCACGGCTGTGCTAGAATTGTTCCAAGACACACATTTTGGTAAAAGGGAGACAATAATGACATCTAAAGAATTTGTTCTTTCTCTGTGTTCACATATCATTCACCCCAAGAAAAGGCAGATGTTGGACCGGCAAGGACAGACCTCACATCTGTCCCTTCCAGGGTCTCCTTGTCACATAGCCGCCTCTGTCAGGGTAGCAACAGTCAGCTTCCTCGAGCATCTCTCTGAGTCCTGCCCAGGGGCAAGCACACAAGCTCTAAAAAGCTGGACAGTCTCAGAGGACCAGTGTCCTCCGGCATACCTCTTTAAACCGCACGATTATTCATAGCCTGGTGTTCCATCAGACAGTCCTCATCGCCTCAGCAAGGATTCTTCCTCTCTCTTTTGTAATTTATTTATTTTTGTTTTATGTGCATTGCTGTTTTGCCTTCATGTATGTGGTGTGAGGGTATCAGATCCCCTGGAGCTGGAGTTACAGACAGTTGTGAGCTGCCATGTGGGTGCTGGGAATTGAACTCGGGTCCTCTGGAAGAGCTGTCAGTCCTCCTAACTGCTGAGCTGATGGACCCTACCTCTTACCCCCTTCTTTTTCTCCTTCAACCATTTTATTAGTTTCTTTCTTTAATATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATACATGCCTGCAAAGGATAGGGGCATCCGGTTCTCTCTAGAATTAGAGTAAACAAGTGTGGTACTAGAAACCAAATTCGGGTCCTGTACAAGAGCAGTGCATGTCCTTAGCCTCTAAGCCATCTCTCTGTCCTCTAACATCTCTCTTCAGTATGACAAAAATACCAAAGTGCTGCAACTCAAGGAAGGAAGGCTCTTTTGGCTCACGGTTAGGGAGGGCACAGTCCTTCCTGGTGGGGAGGGCATGGTGGAGTTCACTGGCAGGGGTGTGTATCTGGGTCTCCTCACATCTCTGAGGATCAGGAGCAGAGAGAGCAGAAGAGAGTCCAGGTTATAACTCTGACCATCCCTCCTGCAGAGACCCACCTTCTCCTGCTAGGCCCTACCTCTCAAAACAGAGCCTCCAGCAGGGGACCAAACATTCCAACACATGAGCCTCTGGGGGACATTTCACATTCAATCCACATCACTACTATAGTCTTTATTCATTTCAAAAACCACTGCCCTGGATCTGTGCACTGTTTTAAGTGTTTGTCAGCATTTGGTCAGTTAACTGACACCATGCGATGGTAATTCCTCCATCTGAATATTCACCTGCACTTGAGAGATAACCCATCTAGTTACAGTTTCAACCAAAGCTAAGGCGAGAAAATCCTCCCTTGGGTTTTAATCTTTCATACAACAGTGTTCTAATTCATAGAAAAGATGGAGTCCAAGCCAGGGAAATATGCATCTGTAGATTTAGCTGTGAGTCCCTGTTACCAGAATTTCAAGATATCTTTGCTCTGGGAGGTGGGTCTTTCTTCTGGTACTAGCGCTCTTGCCATGAGCCATCAACTCTCTCAGCACAGTTCTTCCTCCTGCTGTCCCAGTCCCTAACTTTCACTCACCAATACAGTAGTGCTATGGGTTGACTGTCCCCTCTACTACAAATTGCACTGTAATTAACAGTATTTAGAAGTGGCACTTTGGCAGGGAGTTAGGTTGTAAAATCTCTGTCCCTGAATGGACTGAACCAATACTATTTTCATGGGACTGGCTTAGTTGTGTTATCATTTGGCTGTTGCTTTAAGAAAGGGGCTTTTATAAACCACTATCCTTTAACTGTTATACTTTTAAAATGAAAATAAAGGCAGGAGTGTTGGTGCATGCCTATAATCCAGCCCAGGGGTGGGAGAGGCCAGGGAGACTGCATTGTGGGAAATGGACCTGCTAGGTAGGAAGGAAGCAGGTGACTGCTAGGATGCCCTAGTTGCCCAACACTTCCCTTTCCCTGCAG
Seq C2 exon
AACCTTTGCCTCGCGGAGGAAGCTGCGTTACTGGAAGTTTTCTATGAACTGCACGGGCACTGAAGCGCATATCTCCAGCTGCAAGCTGGGCCCTTCCGTGACCCGGGACCCTGTGAAGAACGCCACCTGTGAGAACGGGCAGCCAGCTGTGGTCAGTTGTGTGCCTAGCCAGATCTTCAGCCCCGATGGACCCTCAAGGTTCCGGAAAGCCTACAAGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034205:ENSMUST00000022660:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PU(48.1=71.8)
A:
NA
C2:
PF0053013=SRCR=PD(50.9=72.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types