MmuINT0048240 @ mm9
Intron Retention
Gene
ENSMUSG00000002668 | Dennd1c
Description
DENN/MADD domain containing 1C [Source:MGI Symbol;Acc:MGI:1918035]
Coordinates
chr17:57211211-57211477:-
Coord C1 exon
chr17:57211432-57211477
Coord A exon
chr17:57211313-57211431
Coord C2 exon
chr17:57211211-57211312
Length
119 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
CTCATGTTTGTCTCCTGCAGAGA
3' ss Score
10.5
Exon sequences
Seq C1 exon
TGCGCCCATGCCCTACCTCATAGGAGTCCATGGCAGTCTCGCAGAG
Seq A exon
GTAAACGCTGAAATACCCCAAGGCTGGAGCCGGGGGGGGGGGGGGGGGGGGGGGATGCCCTCTCCCTCCAGTTACTCAGAGTCCTGCCTCTGTATGGGGCTCATGTTTGTCTCCTGCAG
Seq C2 exon
AGAGTCCGAGAAAAAGCGCTGGAAGATGTTGTGGTGTTGAATGCAGACTCTAACACCCTGGAGACACCCTTTGACGATGTGCAAGCTCTGCCGCCGGATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002668-Dennd1c:NM_153551:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0214116=DENN=FE(7.4=100)
A:
NA
C2:
PF0214116=DENN=PD(8.3=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCCATGCCCTACCTCATAG
R:
ATCCGGCGGCAGAGCTTG
Band lengths:
143-262
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: