MmuINT0096267 @ mm10
Intron Retention
Gene
ENSMUSG00000025409 | Mbd6
Description
methyl-CpG binding domain protein 6 [Source:MGI Symbol;Acc:MGI:106378]
Coordinates
chr10:127287396-127287690:-
Coord C1 exon
chr10:127287627-127287690
Coord A exon
chr10:127287539-127287626
Coord C2 exon
chr10:127287396-127287538
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCC
5' ss Score
7.13
3' ss Seq
ATGGATGTCTGTGTTGTCAGGCA
3' ss Score
3.5
Exon sequences
Seq C1 exon
GTGTGGGCTAAGCTGGTGGCCCCGGCTTTAGACTGGATCCCACAATGTTTGCAGAGATGTTCAG
Seq A exon
GTAGCCATGGTGGTATGACAGAACTCTCCCTCAGGTACCCAGCCCGGTGTAAGCGTCCTCGTGCCCACATGGATGTCTGTGTTGTCAG
Seq C2 exon
GCACAGGGGAGCTCATCACACACAATGAATGGAGACAATGCGAGCAGTGCAGCAGACAGAGCTGGGGGCCCTGCCGCCACGCCTGTCCCCATCCCCATCGGGTGGCAACGCTGTGTGCGAGAAGGTGCTGTGTACTATATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025409:ENSMUST00000026476:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.425 A=NA C2=0.425
Domain overlap (PFAM):
C1:
PF0142914=MBD=PU(32.9=57.5)
A:
NA
C2:
PF0142914=MBD=PU(33.3=57.5)
Main Skipping 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:
CGGCTTTAGACTGGATCCCAC
R:
GTACACAGCACCTTCTCGCAC
Band lengths:
177-265
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