MmuINT0094697 @ mm10
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25564576-25564971:-
Coord C1 exon
chr2:25564825-25564971
Coord A exon
chr2:25564711-25564824
Coord C2 exon
chr2:25564576-25564710
Length
114 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
TCTCCCCTTCTCATTTCCAGGCC
3' ss Score
11.71
Exon sequences
Seq C1 exon
GTTCCTGTGACTTTGAAACTGGCCTGTGTGGGTGGAGCCACCTGCCCTGGCCCAGCCTGGGCGGGTACAGCTGGGACTGGAGTAGTGGAGCCACCCCATCCCGCTACCCCCAGCCTTCAGTGGACCATACCCTGGGCACAGAAGCAG
Seq A exon
GTGTGCATTGGCTGGAGCAGGGCATGGGCTGGTACCATCTCACAAAACCGGGCAGTGCTCACTCAACTTCCCTCAAGCTCGAGATACAGATGCATCTCCCCTTCTCATTTCCAG
Seq C2 exon
GCCATTTTGCTTTCTTTGAAACCAGCGTGCTAGGTCCTGGGGGCCAGGCAGCCTGGCTGCGCAGTGAGCCACTGCCAGCAACAACAGTCTCATGCCTCCGCTTCTGGTACTACATGGGCTTTCCTGAGCATTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941:ENSMUST00000114223:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(28.3=94.0)
A:
NA
C2:
PF0062918=MAM=FE(27.1=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:
TTTGAAACTGGCCTGTGTGGG
R:
GCCCATGTAGTACCAGAAGCG
Band lengths:
255-369
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