MmuINT0096271 @ mm10
Intron Retention
Gene
ENSMUSG00000025409 | Mbd6
Description
methyl-CpG binding domain protein 6 [Source:MGI Symbol;Acc:MGI:106378]
Coordinates
chr10:127284698-127286572:-
Coord C1 exon
chr10:127285532-127286572
Coord A exon
chr10:127285357-127285531
Coord C2 exon
chr10:127284698-127285356
Length
175 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
GAGTTTGTTTTCTTTTACAGGTG
3' ss Score
11.93
Exon sequences
Seq C1 exon
GAGAGGGAGCAAGCCCCCAGATGTTCCACACTGTGTCCCCAGGGCCCCCCTCTGTCCGCCCTCCTTGTCGAGCTCCTCCTACAACTCCACTTAACGGGGGTCCTGGCTCCATTCCCCAAGACCCACCTTCCGTTCCCCAGGCCTTCCCCCCTCTGACAGGCCCTGCAGGGCTCTTCCCACCACCCCGGCTTCCTGATCCAGTTCCCTCTGCAGGCAGCAGCAGCCCTTGTTTCCTCCCAAGAGGCAATGCTCCCTCTCCAGCCCCACCTCCCCCACCTGCTATCAGCCTCAATGCCCCCTCCTACAACTGGGGGGCTTCCCTCCGATCCAACCTGGTGCCCTCTGACCTGGGCTCTCCTCCAGCCCCTCACGCCTCCTCTTCACCACCCTCAGACTCTCCTCTCTTCCACTGTAGCGATGCCTTAACATCTCCTCCCCTGCCCCCAAGCAATAACCCCCCTGGTCCCCCTGGCCCCCCTGGTCCTGCCACTCAGCCACCAGTGTCTTCAGCCACTATGCACCTGCCCTTGGTCCTGGGATCCTTGGGAGGGGCCCCCGCAGTGGAGGGGCCTGGGGCACCCCCATTCCTTGCTAGCAGTCTGCTCTCTGCAGCAGCCAAGGCCCAGCTGCCCCCTCCCAGCACTTTACAGGGCCGAAGGCCCCGTGCCCAGGCACCCTCAGCTGCCCATGCATCACCCCGTCCCTCTCAGCGGCGGCCTCGCCGGCCCCCAACTGTCTTGCGGTTGCTAGAAGGGGGAGGCCCTCAGACCCCTAGACGGACTCGTCCTCGGGCCCCTGCTCCTGTCCCTCAGCCCTTTCCTCTCCCAGAGCCATCCCAGCCTATTCTCCCCTCTGTGCTGTCCCTACTGGGACTCCCCACCCCTGGCCCTTCCCACTCGGATGGAAGCTTTAACCTTTTGGGGTCAGATGCACACCTTCCTCCTCCCCCAGCCCTCTCCTCAGGGAGCCCTCCCCAGCCCAGGCACCCCATTCAGCCCTCTCTGCCTGGGACCACCAGTGGCAGCCTCAGCAGTGTGCCAG
Seq A exon
GTATGAGTGACAAGGGATTTCTAAGCTCAGCCTTACAGCCATCCAGGGCACAGGGGGCGGGGAGGGGGTAGTTTGGAGAGCACTCTGGTGGGTTGGGGGTTTGTGTTGGAGAGGTTGGGTTCTGTGGGTGCCAGGAAGAGGGCTTTCCAGGAGCTGAGTTTGTTTTCTTTTACAG
Seq C2 exon
GTGCCCCTGCCCCACCAGCTGCCTCCAAAGCCCCCGTAGTCCCCAGTCCTGTGCTTCAAAGCCCGTCTGATGGGCTGGGGATGGGGGCAGGCCCAGCCTGCCCTCTGCCTCCCTTGGCTGGTGGGGAGGCTTTCCCTTTCCCCAGCCCTGAGCAGGGCCTGGCTCTCAGTGGAGCTGGCTTCCCGGGGATGCTAGGGGCCTTGCCTCTCCCTCTGAGTCTGGGGCAGCCTCCCCCTTCTCCATTCCTTAGCCACAGTTTATTTGGTGTGCTGGCGGGGGGAGGACAGCCTCCTCCTGAGCCCCTGTTGCCCCCGCCAGGGGGGCCTGGCCCTCCCTCAGCCCCAGGCGAGCCCGAAGGGCCTTCACTCTTGGTGGCTTCTCTGCTTTCACCACCCCCTTCCGACCTCCTCCCGCCTCCTTCTGCACCCCCTAGCAATCTCCTTGCCTCTTTTCTGCCCCTGTTGGCCCTGGGCCCCACAGCTGGGGATGGGGAAGGCTCTGCAGAGGGAGCTGGGGGTCCAAATGGGGAGCCATTTTCAGGTTTGGGAGACCTGCCCCCCCTATTATTTCCCCCACTTTCAGCCCCACCCACCCTCATAGCTTTAAATTCTGCGCTGCTGGCTGCCAGCCTGGATCCCCCTTCGGGGACACCCCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025409:ENSMUST00000026476:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.992 A=NA C2=0.868
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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:
ATTCTCCCCTCTGTGCTGTCC
R:
GAAGCACAGGACTGGGGACTA
Band lengths:
256-431
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