MmuINT0094684 @ mm10
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25567353-25567774:-
Coord C1 exon
chr2:25567586-25567774
Coord A exon
chr2:25567482-25567585
Coord C2 exon
chr2:25567353-25567481
Length
104 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
GCAGGCTACTGTTGTTACAGGCA
3' ss Score
3.42
Exon sequences
Seq C1 exon
CTATGTCCACCCTGCAGTCATCACTTTCTGGACCTGTGCCATTAGCCCTCTATCCCCAGACATCCATCAAGCTGCCCCAGCAGACCTGTGAGCCAGGACATCTCTCCTGTGGTGACCTGTGTGTGCCCCCTGAGCAGCTGTGTGATTTCCAGAAGCACTGTGCAGAGGGCGAGGATGAACACAAGTGTG
Seq A exon
GTGAGGCCAGTCAGAGCCTGCATGGCTCCACACGTTTAGGGAGCCCAAGCTGGCCAGAGAACGCGACACTGCTGGGCTTTCAGAGCAGGCTACTGTTGTTACAG
Seq C2 exon
GCACCACAGACTTTGAGTCCGCCTCTGCTGGGGGCTGGGAGGACATCAGTGTAGGGAAGCTGCAGTGGCAATGGGTTGAAGCCCAGGAGAAGAGCAAGCCTGCCGGGGATGCCAATCGGGATGCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941:ENSMUST00000114223:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.379
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=56.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(0.1=0.0),PF0062918=MAM=PU(45.5=90.9)
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:
GCCATTAGCCCTCTATCCCCA
R:
GCTCTTCTCCTGGGCTTCAAC
Band lengths:
247-351
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