MmuINT0097665 @ mm10
Intron Retention
Gene
ENSMUSG00000057751 | Megf6
Description
multiple EGF-like-domains 6 [Source:MGI Symbol;Acc:MGI:1919351]
Coordinates
chr4:154263170-154263521:+
Coord C1 exon
chr4:154263170-154263301
Coord A exon
chr4:154263302-154263392
Coord C2 exon
chr4:154263393-154263521
Length
91 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
ATCCTCCTTACCACCAACAGCTT
3' ss Score
5.35
Exon sequences
Seq C1 exon
ACTGTCCCGAGGGCCGTTGGGGGCTCGGCTGTCAAGAGATCTGCCCTGCATGTGAGCATGGTGCCAGCTGCGACCCTGAGACTGGAACCTGCCTGTGTCTTCCTGGTTTTGTTGGTAGCCGCTGCCAGGATG
Seq A exon
GTGAGTATAACTCGTGTCTGACCTCAGCCTCAGCCTATGGCCCTGAGTAGGCACACCAGGCTGCCATGCTCATCCTCCTTACCACCAACAG
Seq C2 exon
CTTGCCCAGCAGGCTGGTTTGGGACCGGCTGCCAGATGAGGTGTGCTTGTGCCAATGATGGGCATTGCCATCCGGCCACTGGACGCTGTAGCTGTGCCCCTGGGTGGACTGGCCTCAGCTGCCAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057751:ENSMUST00000030897:19
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(68.9=68.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(28.9=29.5),PF0005319=Laminin_EGF=PU(69.0=65.9)
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:
CTGGAACCTGCCTGTGTCTTC
R:
CTGAGGCCAGTCCACCCAG
Band lengths:
169-260
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