MmuINT0097680 @ mm10
Intron Retention
Gene
ENSMUSG00000057751 | Megf6
Description
multiple EGF-like-domains 6 [Source:MGI Symbol;Acc:MGI:1919351]
Coordinates
chr4:154269647-154270021:+
Coord C1 exon
chr4:154269647-154269775
Coord A exon
chr4:154269776-154269892
Coord C2 exon
chr4:154269893-154270021
Length
117 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
ATTTGCCCGTCCCTGCACAGCCT
3' ss Score
8.43
Exon sequences
Seq C1 exon
GCTGTCCCCAGGACCGGTTTGGCAAGGGCTGTGAACACAAGTGTGCCTGCAGGAATGGGGGCCTGTGTCATGCTACCAATGGCAGCTGCTCCTGCCCCCTGGGCTGGATGGGGCCACACTGTGAGCACG
Seq A exon
GTGAGTGTGAGGGGTGGCTGGTCCCTGAGAAGGAGGCGGAGTTTGGGGGCCTGGGAGGCTGTGTAGGGGTGGTGAGTCAGGGAGCAACTAAGAATCCATTTGCCCGTCCCTGCACAG
Seq C2 exon
CCTGCCCTGCTGGGCGCTATGGTGCTGCCTGCCTCCTGGAGTGTTCCTGTCAGAACAATGGCAGCTGTGAGCCCACCTCCGGCGCTTGCCTCTGTGGCCCTGGCTTCTATGGTCAAGCTTGTGAAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057751:ENSMUST00000030897:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126612=hEGF=WD(100=29.5)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(60.9=63.6)
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:
TCCCCAGGACCGGTTTGG
R:
CTTGACCATAGAAGCCAGGGC
Band lengths:
242-359
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