MmuINT0097634 @ mm10
Intron Retention
Gene
ENSMUSG00000036466 | Megf11
Description
multiple EGF-like-domains 11 [Source:MGI Symbol;Acc:MGI:1920951]
Coordinates
chr9:64685880-64686497:+
Coord C1 exon
chr9:64685880-64686026
Coord A exon
chr9:64686027-64686362
Coord C2 exon
chr9:64686363-64686497
Length
336 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGG
5' ss Score
6.38
3' ss Seq
CTCCCCTCTGACACCCTCAGTCT
3' ss Score
6.01
Exon sequences
Seq C1 exon
GCATCCGCTGTGATAGCACGTGTCCTCCAGGTCGCTGGGGCCCCAACTGTTCAGTGTCCTGCAGCTGTGAGAACGGAGGTTCCTGCTCCCCGGAGGACGGGAGCTGCGAGTGTGCCCCTGGCTTTCGAGGACCCTTATGTCAGAGAA
Seq A exon
GTAAGGCTCCTGATTTCCCGTTCCCTGAGCCCCTCCCAGCCAGTAGTGCTGGCCTGTGGAAGGCTGGCCTGTGGACCCCAGGCCCCTTTTCACTCCCTTTTCCCCTGTTGTCCTTCCTCCCGTGTCCTGGCTGTTCTGTTCCTAAGTTCAATGTCTAGGTTCTCAAAAAAATCAGGGCCAGCCCACAGTTCTCTTCAAAGGGGATGGACCTCCCGGTGTGGGGACCCTAGACTTCCCCATTTTCAAGAAGCCTTTCTTCACTGGAACGGGGGAGAGGTGGCTAGGCCAGCTGTTCCTACAAGCTTCTGACCAGCGTCTCCCCTCTGACACCCTCAG
Seq C2 exon
TCTGCCCACCAGGATTCTACGGCCATGGCTGCGCCCAGCCTTGTCCCCTCTGCGTGCACAGCAGGGGGCCCTGCCACCACATCAGTGGTATCTGTGAGTGCCTGCCAGGATTCTCTGGAGCCTTGTGCAACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036466:ENSMUST00000093829:13
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(68.8=66.0)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(29.2=30.4),PF126612=hEGF=WD(100=28.3)
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:
GTGATAGCACGTGTCCTCCAG
R:
CTTGGTTGCACAAGGCTCCAG
Band lengths:
273-609
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