MmuINT0048239 @ mm9
Intron Retention
Gene
ENSMUSG00000002668 | Dennd1c
Description
DENN/MADD domain containing 1C [Source:MGI Symbol;Acc:MGI:1918035]
Coordinates
chr17:57211432-57211859:-
Coord C1 exon
chr17:57211759-57211859
Coord A exon
chr17:57211478-57211758
Coord C2 exon
chr17:57211432-57211477
Length
281 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
AGTCTGTGTCCTCTCCACAGTGC
3' ss Score
9.54
Exon sequences
Seq C1 exon
CTGACAGCCTGTGTTCACGCATCCTGTGCCCTGCTCTACCCCATGCGCTGGGAGCACGTTCTGATCCCCACTCTACCCCCACACCTACTGGACTACTGCTG
Seq A exon
GTGAGAAAAGCGGAGGTGGGGAATGAGGAAGGGCAGGCAACGGGAAAGCCTGGAGAGTTGCTAGCCTTTAATCTTAGCAATCTTAGCACGTGTGAGACAAAAGGCTGGAGGCTCTCTTTATGTCCCAGGCCAGCCTGGTCTACAATGAGTCCCTATCAGAAAAAGTCAAAAAAGAAAATCAAGAGTCCCAGGGTAGCCTGGGCTACATAAAGCAGGCAGAGTTGAAAGGCTTGAGGGTTTGAGATATGCATCTGCCTCTCCAGTCTGTGTCCTCTCCACAG
Seq C2 exon
TGCGCCCATGCCCTACCTCATAGGAGTCCATGGCAGTCTCGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002668-Dennd1c:NM_153551:11
Average complexity
IR-C
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(16.2=100)
A:
NA
C2:
PF0214116=DENN=FE(7.4=100)
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:
GACAGCCTGTGTTCACGCATC
R:
CGAGACTGCCATGGACTCCTA
Band lengths:
140-421
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: