MmuINT0048242 @ mm9
Intron Retention
Gene
ENSMUSG00000002668 | Dennd1c
Description
DENN/MADD domain containing 1C [Source:MGI Symbol;Acc:MGI:1918035]
Coordinates
chr17:57210342-57211120:-
Coord C1 exon
chr17:57210995-57211120
Coord A exon
chr17:57210447-57210994
Coord C2 exon
chr17:57210342-57210446
Length
548 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
GGAAGGAATCCTTCTTCCAGGGT
3' ss Score
3.24
Exon sequences
Seq C1 exon
GTATCCCTGCTGAGGCTTCGGCTAAGGAAGGTTGCCCTGAGCCCTGGGGAAGGGGTGTCCCGTCTCTTCCTCAAAGTGCAGGCCCTGCTCTTTGGAGGGTACCGTGATGCCCTTGTCTGCATCCCG
Seq A exon
GTGAGTAGATGGAGGAGGAGAGATGTCTAGGGACAGGCCTCTCAGGGATAAATTACAACATAGAGACCACCTAGTGGGCCAGGCAGTGGTGGCAGAGGCCAACCTGCTCTACAGAGTGAGTTCCAGGACAGCCAAGGCTACGCAGAGAAACCTTGTCTCGAAAAACCATAATAATAATAATAATAATAATAATAATGATAATAATAATAATGATGATGATGATGATGATGATGATGATAAATAATGTGTTTTGAGTCTGAACCCCCTGATTCTTTTTTCTTGAGACTGGCTCTTTGTAGCCCAGGCTGCCCTCGAGCTTATTATGTAACCAGCAGCAATCTCCCTACAGCAACCGCTGACACTATCAACATTATTTAATACTGACAGCCACATTATAGATGAGGATGAGCTGTTCCATGAGGTCCTGCACAGGATCAGGTACACAGTAGGCACCGAATTAGTGCTTGCTGGGTAGCTATGAAGTTGGAAGAAAGATGATAGGAGAAAGGAGAGCCCCCAGGGAACTCCGGAAGGAATCCTTCTTCCAG
Seq C2 exon
GGTCAGCCAGTGACCTTCAGTGAGGAAGCTTTTTTGGCTCAGAAGCCCGGGGCACCCCTGCAGGCATTCCACAAAAAGGCGGTACACTTGCAGCTGTTCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002668-Dennd1c:NM_153551:14
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:
PF0345514=dDENN=PU(39.7=64.3)
A:
NA
C2:
PF0345514=dDENN=FE(50.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
TATCCCTGCTGAGGCTTCGG
R:
TGAACAGCTGCAAGTGTACCG
Band lengths:
225-773
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: