MmuINT0094696 @ mm9
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25420345-25420706:-
Coord C1 exon
chr2:25420616-25420706
Coord A exon
chr2:25420492-25420615
Coord C2 exon
chr2:25420345-25420491
Length
124 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CACCTGCCAGTTCCTTGCAGGTT
3' ss Score
4.23
Exon sequences
Seq C1 exon
GTGGTGTTTGAGGCTGTGGCTGCTGGTGTAGAATATTCCTACATGGCTCTAGATGACATTTCCCTCCAAGATGGGCCCTGTCCTCAGCCAG
Seq A exon
GTGAGTTGCTTGCTATGGCCTGAGTAGCACTATATCTATACCAAAACTCTGACTTCCACCTAGCCCTGCCTGGGAGTAGTGCTACTCACTGGGGCAGCTATGCTCACCTGCCAGTTCCTTGCAG
Seq C2 exon
GTTCCTGTGACTTTGAAACTGGCCTGTGTGGGTGGAGCCACCTGCCCTGGCCCAGCCTGGGCGGGTACAGCTGGGACTGGAGTAGTGGAGCCACCCCATCCCGCTACCCCCAGCCTTCAGTGGACCATACCCTGGGCACAGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941-Mamdc4:NM_001081199:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.080
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(17.8=90.3)
A:
NA
C2:
PF0062918=MAM=PU(28.3=94.0)
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:
GGTGTTTGAGGCTGTGGCTG
R:
CTGCTTCTGTGCCCAGGGTAT
Band lengths:
236-360
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: