MmuINT0094694 @ mm9
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25420800-25421141:-
Coord C1 exon
chr2:25421004-25421141
Coord A exon
chr2:25420919-25421003
Coord C2 exon
chr2:25420800-25420918
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AGCTGGTTCTTGGTGTTTAGGCA
3' ss Score
4.81
Exon sequences
Seq C1 exon
GGCACTACATGGTGGTGGACACCAGCCCAAATGTACTGCCCAAGGGTCATGTGGCCGCTCTGACTTCAGAGGAACACCAGCCCCTGTCCCAGCCTGCCTGTCTGACCTTCTGGTACCACATGAGCGTCCCCAATCCAG
Seq A exon
GTGAGAAGCTATAGGAAAGGGAAGGACCCCTGTCCAGGACTGGGAGCTACCAGGGCAGTGAATCTAGCTGGTTCTTGGTGTTTAG
Seq C2 exon
GCACCTTGAGGGTCCACGTGGAAGAGAGCACAAGGCGTCAAGAGCTCAGCATCAGTGCCCATGGTAGATCTGCCTGGCGCCTGGGCAGCGTCAATGTGCAGGCTGAGCAAGCCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941-Mamdc4:NM_001081199:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.170 A=NA C2=0.174
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(29.3=100)
A:
NA
C2:
PF0062918=MAM=FE(24.8=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:
GTACTGCCCAAGGGTCATGTG
R:
GCAGATCTACCATGGGCACTG
Band lengths:
179-264
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: