MmuINT0096267 @ mm9
Intron Retention
Gene
ENSMUSG00000025409 | Mbd6
Description
methyl-CpG binding domain protein 6 [Source:MGI Symbol;Acc:MGI:106378]
Coordinates
chr10:126724452-126724746:-
Coord C1 exon
chr10:126724683-126724746
Coord A exon
chr10:126724595-126724682
Coord C2 exon
chr10:126724452-126724594
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-Mbd6:NM_033072:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.425 A=NA C2=0.419
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: