MmuINT0094700 @ mm10
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25563532-25564274:-
Coord C1 exon
chr2:25564166-25564274
Coord A exon
chr2:25563708-25564165
Coord C2 exon
chr2:25563532-25563707
Length
458 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
ATGGCCCTCTTTGTCCTCAGGTG
3' ss Score
11.72
Exon sequences
Seq C1 exon
ATTGTTTTTGAAGCCACTCTGGGTGGCCAGCCAGCTCTGGGGCCCATTGCCATTGATGATGTGCAGTACCTGGCTGGACAACAGTGCAAGCAGCCTTCACCTAGCCAGG
Seq A exon
GTAAGCACTGGACTCCAGGATGGCCAGACTTGCCCTGACCCTGCCAGGCTTAGGCTGGCGGCCCAGATAGCTGGAAGTACGCTGTGCCCTGCTCGGGAGACCAGCGGAACCAAGACTGAGTTCTGTGCTCTCCCCACTATGCCTCACGGGCTGAACACAGGGGCTATATCAGCTTTTACTGTCTCCTCCTGGGTAAGAACTATCTCGAAGGAACTGCCAGGTTACACCAGAAACCCCAGTGGGTGTGGCAGTCACTGGCTACCATCATGTATGTCCAGAGGAAGAGGTGGAACAGGTCTGCCGAATTGTGCATACAGATCAACAAGAATCCTGGCGCCAGCAAGCACTGGAGGGATCAGGCAGCCCCAGGCTCACTCCTTGACAGTAATCCTGGGAACAGAACCTGACAAAAGAACTGGGAACTATGTGGAGGTTCAGATGGCCCTCTTTGTCCTCAG
Seq C2 exon
GTGAAGTGGCAGCACCCGTGTCTGTGCCAGTTGCCGTTGGAGGAGCCCTCCTCTTTTTCATGTTCCTGGTGCTCATGGGCCTTGGGGGCTGGCATTGGCTGCAGAAGCAGCACTGCCCCGGCCAGAGGAGTACAGATGCAGCAGCCTCTGGCTTTGCCAATATCCTCTTCAATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941:ENSMUST00000114223:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.006
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(18.1=81.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTTGAAGCCACTCTGGG
R:
CGCATTGAAGAGGATATTGGCA
Band lengths:
283-741
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