MmuINT0094702 @ mm9
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25425214-25425600:-
Coord C1 exon
chr2:25425427-25425600
Coord A exon
chr2:25425340-25425426
Coord C2 exon
chr2:25425214-25425339
Length
87 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
AACCTCTCAACCTGGACCAGGCT
3' ss Score
1.74
Exon sequences
Seq C1 exon
GTTTCCATGGAGCCTCAACTATCCCAAGCACCTCCTTCACCTGCAACTTTGAGCAGGACTCCTGTGGCTGGCAGGACATCAGCACCTCAGGCTATCGATGGCTTCGAGACCGGGCAGGGGCAGTGCTGCATGGTCCTGGGCCTCATTCTGACCATACACATGGCACTGACTTGG
Seq A exon
GTAAGGCCTAGGGAATCCACGTCCACTCATCCCCTCCCTACTAACTTGGTTTCTTGTCTGGTCTCCTAACCTCTCAACCTGGACCAG
Seq C2 exon
GCTGGTATATGGCTGTGGGAACCCACAGTGGGAAGGAGCCATCTACTGCGACTCTGCGTTCTCCTGTCATGCGTGAGGCAGCCCCTACCTGTGAACTGAGGCTCTGGTACCACATTGCCTCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941-Mamdc4:NM_001081199:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.209
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(28.0=74.6)
A:
NA
C2:
PF0062918=MAM=FE(26.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCAGGCTATCGATGGCTT
R:
CCTCACGCATGACAGGAGAAC
Band lengths:
169-256
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: