MmuINT0094686 @ mm10
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25566904-25567258:-
Coord C1 exon
chr2:25567127-25567258
Coord A exon
chr2:25567029-25567126
Coord C2 exon
chr2:25566904-25567028
Length
98 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTA
5' ss Score
7.04
3' ss Seq
ATACTAATTCCCTTCATCAGGCT
3' ss Score
5.84
Exon sequences
Seq C1 exon
GGCACTTCCTATCTCTGCAGAAGGCCTGGGGGCAGCTAAGATCTGAGGCCCGGGCTCTCACACCTGCTCTGGGCCCCTCTGGCCCTCACTGTGAACTCCACATGGCTTACTATTTTCAAAGTCACCCCCAAG
Seq A exon
GTATTACACGTCCCTGGTCCCAGTCCCCAGAAGCCTCCTGCATGGCAGACAGGTTCTTAGGATGACCCACCCCCATCCATACTAATTCCCTTCATCAG
Seq C2 exon
GCTTCTTGGCACTGGTTGTGGTGGAGAATGGCTTCCGGGAGCTGCTGTGGCAAGCCCCAGGCGGCGGCAGCGGGAGCTGGACAGAGGAGAAGATTATTCTCGGGGCACGGCGCCGGCCGTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941:ENSMUST00000114223:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.104 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(28.2=100)
A:
NA
C2:
PF0062918=MAM=FE(26.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGGCCCTCACTGTGAACT
R:
GCCGTGCCCCGAGAATAATC
Band lengths:
167-265
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