MmuINT0097638 @ mm9
Intron Retention
Gene
ENSMUSG00000036466 | Megf11
Description
multiple EGF-like-domains 11 [Source:MGI Symbol;Acc:MGI:1920951]
Coordinates
chr9:64540162-64541804:+
Coord C1 exon
chr9:64540162-64540290
Coord A exon
chr9:64540291-64541567
Coord C2 exon
chr9:64541568-64541804
Length
1277 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
AGGCCTCCCTCTGCCCACAGCTG
3' ss Score
10.04
Exon sequences
Seq C1 exon
GATGTGCCCCTGGAACCTTTGGATATGGGTGTCAGCAGCTATGTGAGTGCATGAACAATGCCACTTGTGACCACGTCACTGGTACCTGTTACTGTAGCCCGGGATTCAAAGGAATCAGGTGTGACCAAG
Seq A exon
GTAACATACAGGTGGCAGGGTGCCTGGACAGGGTGGGAAGGGCCCAATTATGGGTGGCTTTGGAGAGTTCTAACCAGACCAGTTGAGTTTTATGACATTACCTTTTATTCACAGTTGGGAGCCTCTCTTCATAGCATTTCTGCTAATCCTCTGGTAGTTCCCCCATGAGCGAGGCAAGAGTGAACCAGAGGCTAGTGCTGGGAAAGGGCACCAGTCAGGCTACACTGCAACACTTGCCTAGTTGACTTCTGCCACTCCCTGCTAGGTGTCTCTGGGCAGGTCATTTCCTCTGCTGGGTCTTTTACTCCACATTCAATTGAACAGACATTAACCTTTGTCCAAAGGGCTCAACTTGACTCTAGCTCTATGCCTAGGTGACATTGCATGGTACAGCTGAGAGGGATCAAATCCAGTCAATTCAAGAAAGGTCTCAGCACAGTGCCTGGCACATGTGAGCACTCTGTAAATGATGGCTTTGTACATGGGAAGTCCTTTTGTTTTGCAGATGTGGGAGGCTATTGTTGGTTTTAGAAGATGGGGATAGAAAACAGGCTCTCAATTACCCACATCAGACACACTTACTTTGCAATGTGAAGCTATGCAGCTCAGGCAAATGCAACATTGGCTGTCCTAGAAGTGACAACCCACTTTCTTTAGCCAGTAGCAGAGAACCAAGGGGGGGTCTAGATCCTGCACATTAAGAAATCAGATGCTTGCCAGGGCAGTCAGAGGGACTTAGCCACACATATATAATCAAGAGTTATCTTAGGGCAGTAACAGGCAGTCACAGAGCTACCAGCTGTCAAGGCCAGTCTATCATTTGGTGTTCATGACTCCCCAGGGAAGCTGGCGTTGCTGTCCCTATGAACCTTCTAAGTCACATGGCTGGTAGAGCAGGAAGAGTAGCAGAAGCCAGTTCTTCCTGACTGAATTACTGGTTGGGTGAACTTAGACACGTCCCCTAACCTTGGTGACTCAGTTTACTTATTTTTTCCAACCATGTAGAAAGGGTAAGTAATTAGTTCCCTTTTTGTAGGCCTGCCATGTTAAAGCAAGTAACTTCAACTCTGTGGACCTGAGTGGATATTCAGCATTTATTTTGCTTCACACCTAAATCACATTCTCTTCCTTAATTTAACCCTGAGACTCAATCACTTTCTGGCATTGGAAGAAACAGCACTGTGAGGGTTGTGTAGGCAGGGATGAAGTTGGGCAAAGGCAGGATGGAATCATGAGGCTCAGGCCCAGCTCTGGCTCAGGCCTCCCTCTGCCCACAG
Seq C2 exon
CTGCCCTCATGATGGATGAGCTGAATCCCTACACCAAGATCAGTCCAGCTCTGGGAGCAGAGCGGCACTCAGTGGGTGCTGTCACCGGCATCGTTCTCCTGTTGTTCCTGGTGGTGGTGCTGCTGGGCCTGTTTGCCTGGCGACGGAGGCGGCAGAAAGAGAAAGGCCGTGACCTGGCTCCCCGAGTCTCCTACACCCCAGCCATGAGGATGACCAGCACAGACTACTCTCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036466-Megf11:NM_001134399:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.065
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(30.2=29.5),PF0005319=Laminin_EGF=PU(82.9=65.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(14.3=6.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCCTGGAACCTTTGGATA
R:
AGTCTGTGCTGGTCATCCTCA
Band lengths:
350-1627
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: