MmuINT0096274 @ mm10
Intron Retention
Gene
ENSMUSG00000025409 | Mbd6
Description
methyl-CpG binding domain protein 6 [Source:MGI Symbol;Acc:MGI:106378]
Coordinates
chr10:127283526-127284215:-
Coord C1 exon
chr10:127284043-127284215
Coord A exon
chr10:127283943-127284042
Coord C2 exon
chr10:127283526-127283942
Length
100 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
AATAGAGATGTTTTTGCCAGCAG
3' ss Score
-1.92
Exon sequences
Seq C1 exon
CAGGTGATCTGTCTTCACTGGCCAGCAGCCCTGGAGCCCTCCCCAGCCTGTTGCAGCCTCCTGGCCCTCTTCTTTCCAGCCAGTTAGGGCTGCAGCTCCTCCCTGGGGGGGGAGCGCCTCCCGCCCTGTCAGAGGCTTCTAGTCCCCTAGCCTGCCTGCTACAGAGTCTCCAG
Seq A exon
GTAAGAGGATGGGTCTCTGTCAGGAAGAAAGTATTTCCTAAGCCTGGGAAGGTTTTCTGAGTACAGAGGACTGTGGTTGAAATAGAGATGTTTTTGCCAG
Seq C2 exon
CAGATCCCTCCAGAGCAGCCAGACGCCCCCTGTCTGCCCCCCGAGAGCCCCGCCTCAGCCCTCGAACCGGAGCCTGCCCGGCCTCCCCTCAGTGCCTTAGCCCCACCCCATGCTTCTCCTGACCCCCCAGTCCCCGAGCTGCTCACTGGGAGGGGGTCAGGGAAACGGGGCCGGAGGGGAGGAGGGGGACTTAGGGGCATTAACGGTGAGACCAGGCCAGGCAGAGGCCGAAAGCCGGGCAGCCGCCGAGAGCCTGGCCGGCTAGCACTCAAGTGGGGGACACGTGGTGGCTTCAATGGACAAATGGAACGGTCCCCAAGAAGGACTCACCATTGGCAGCATAATGGGGAGCTAGCGGAAGGGGGTGCTGAGCCCAAGGATCCACCCCTTCCTGGGACCCATTCTGAGGACCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025409:ENSMUST00000026476:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.832 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCTTCTAGTCCCCTAGCC
R:
CTGGTCTCACCGTTAATGCCC
Band lengths:
257-357
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