MmuINT0091574 @ mm10
Intron Retention
Gene
ENSMUSG00000032698 | Lmo2
Description
LIM domain only 2 [Source:MGI Symbol;Acc:MGI:102811]
Coordinates
chr2:103970129-103970712:+
Coord C1 exon
chr2:103970129-103970365
Coord A exon
chr2:103970366-103970492
Coord C2 exon
chr2:103970493-103970712
Length
127 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAAG
5' ss Score
3.39
3' ss Seq
TCTCTCTTTGGCGTTTGAAGGGA
3' ss Score
7.3
Exon sequences
Seq C1 exon
AGAGACAGAGGGAAGCTGAGCGAAAATAGACCTTCGCGAGAGAGGAGGGAGCCTGGGGAGAGCCGCGCGGTCAGCTCCCCGCCCCCAGGCCGCCGCCCCCTCACTGCCCCCGGCGCCCCGACCCCGGCGAAGGTGCGAGGGGCTCGGGGCGACCGGGCGGAGCCGGCTACTGCGCGCGATCGGGACCGGGCGGCGGCGGCGGCGGCTGTGGTGACGGCAGCGGGACCGGGATGGAAG
Seq A exon
GTTAAGTCCTGAGCAGCGGCAGCTGTCGCAGCCACCGGAGGGAGGCCGGGCTGCTCCCCGGCCCCCTGCCTTGGCCGCCGCGCGCCGGGCAGCTGGATGATTCGCTCTCTCTCTTTGGCGTTTGAAG
Seq C2 exon
GGAGCGCGGTGACTGTCCTTGAGCGTGGAGGGGCGAGCTCGCCAGCGGAGCGACCGAGCAAGAGGAGGCGCAGGAGCGGCGGCGCCCGAGCACCCGAGGGGGTCCGAGTCCAGGCAGCTAGCCAGCCACGCGCCACAAAGGGAGCGCCCCCGCCGCCCGGCACGCCGCCCCCCTCCCCAATGTCCTCGGCCATCGAAAGGAAGAGCCTGGACCCGTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032698:ENSMUST00000111143:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.642
Domain overlap (PFAM):
C1:
PF124483=Milton=PU(2.4=66.7)
A:
NA
C2:
PF124483=Milton=FE(88.0=100)
Other Skipping Isoforms:
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:
ATAGACCTTCGCGAGAGAGGA
R:
CTCCACGCTCAAGGACAGTCA
Band lengths:
242-369
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