MmuINT0094701 @ mm10
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25563137-25563707:-
Coord C1 exon
chr2:25563532-25563707
Coord A exon
chr2:25563370-25563531
Coord C2 exon
chr2:25563137-25563369
Length
162 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGA
5' ss Score
6.86
3' ss Seq
TATTCCTTCCTTCTTCCTAGGAT
3' ss Score
10.41
Exon sequences
Seq C1 exon
GTGAAGTGGCAGCACCCGTGTCTGTGCCAGTTGCCGTTGGAGGAGCCCTCCTCTTTTTCATGTTCCTGGTGCTCATGGGCCTTGGGGGCTGGCATTGGCTGCAGAAGCAGCACTGCCCCGGCCAGAGGAGTACAGATGCAGCAGCCTCTGGCTTTGCCAATATCCTCTTCAATGCG
Seq A exon
GTAGGAACCACCAAATGTGGGCACATGGGAGATCCTGCCTCCATGTTTAATGAGGGGAAAGCAGTAGTGGGCCAGGACGCGGGAAGAGACACCATGTCCCATCCTGTCAGAACCACACTGCCTTTCAACAGCAGCTGTCCAATATTCCTTCCTTCTTCCTAG
Seq C2 exon
GATCATGTTACCCTCCCAGAATCAATCACCAGCAACCCACAGAGCCCTCCAGACCTGGCCTGACATGGCATCTCTTGCAGCATCTAAACCTCACAAGCACCTGACTGTCTACATGTGGGCCTGGATGTAGGGACTGAGTCATATTTACCTTCGCCAGCTCTTTCTCTATCTGGTGTCTTTGCCCTCTGGTGTGATGGAGAAGGGTAGAGGGGTCCTTGTACCAAGAATAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941:ENSMUST00000114223:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.693
Domain overlap (PFAM):
C1:
NO
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:
CATGTTCCTGGTGCTCATGGG
R:
ACTCAGTCCCTACATCCAGGC
Band lengths:
257-419
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