MmuINT0096272 @ mm10
Intron Retention
Gene
ENSMUSG00000025409 | Mbd6
Description
methyl-CpG binding domain protein 6 [Source:MGI Symbol;Acc:MGI:106378]
Coordinates
chr10:127284335-127285356:-
Coord C1 exon
chr10:127284698-127285356
Coord A exon
chr10:127284486-127284697
Coord C2 exon
chr10:127284335-127284485
Length
212 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTAACCATTCTTCGTCTTAGCCC
3' ss Score
5.89
Exon sequences
Seq C1 exon
GTGCCCCTGCCCCACCAGCTGCCTCCAAAGCCCCCGTAGTCCCCAGTCCTGTGCTTCAAAGCCCGTCTGATGGGCTGGGGATGGGGGCAGGCCCAGCCTGCCCTCTGCCTCCCTTGGCTGGTGGGGAGGCTTTCCCTTTCCCCAGCCCTGAGCAGGGCCTGGCTCTCAGTGGAGCTGGCTTCCCGGGGATGCTAGGGGCCTTGCCTCTCCCTCTGAGTCTGGGGCAGCCTCCCCCTTCTCCATTCCTTAGCCACAGTTTATTTGGTGTGCTGGCGGGGGGAGGACAGCCTCCTCCTGAGCCCCTGTTGCCCCCGCCAGGGGGGCCTGGCCCTCCCTCAGCCCCAGGCGAGCCCGAAGGGCCTTCACTCTTGGTGGCTTCTCTGCTTTCACCACCCCCTTCCGACCTCCTCCCGCCTCCTTCTGCACCCCCTAGCAATCTCCTTGCCTCTTTTCTGCCCCTGTTGGCCCTGGGCCCCACAGCTGGGGATGGGGAAGGCTCTGCAGAGGGAGCTGGGGGTCCAAATGGGGAGCCATTTTCAGGTTTGGGAGACCTGCCCCCCCTATTATTTCCCCCACTTTCAGCCCCACCCACCCTCATAGCTTTAAATTCTGCGCTGCTGGCTGCCAGCCTGGATCCCCCTTCGGGGACACCCCCCCAG
Seq A exon
GTAAGACCCAGGGTATGAGCTGGTGGGGCAGAATAAGAATTAAATCAGGCTGGGCTCTTCTCTGGGGAAGACTCAGTCTTGGCTGGGGTAGGGTGGGTGCAAGAAGGGCGCACCCCTACTTCACCCAAAGTCTTAGTCAAACAATGCATATGGAGGTGCTGCTGTACGCCTGTCCGACACTTCACTACACGCTTAACCATTCTTCGTCTTAG
Seq C2 exon
CCCTGTGTCCTGAGTGCCCCCCAACCTGGACCACCTACCTCCAGTGTCACCACGGCAACTACTGACCCGGGGGCCTCCTCTCTGGGCAAGGCCCCCTCCAACTCAGGGAGACCCCAACTTCTTAGCCCTCTGCTGAGTGCCAGCCTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025409:ENSMUST00000026476:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.868 A=NA C2=0.856
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:
TTCTGCACCCCCTAGCAATCT
R:
TGGTGACACTGGAGGTAGGTG
Band lengths:
293-505
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