MmuINT0048297 @ mm10
Intron Retention
Gene
ENSMUSG00000027901 | Dennd2d
Description
DENN/MADD domain containing 2D [Source:MGI Symbol;Acc:MGI:2181193]
Coordinates
chr3:106499221-106499994:+
Coord C1 exon
chr3:106499221-106499305
Coord A exon
chr3:106499306-106499754
Coord C2 exon
chr3:106499755-106499994
Length
449 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TTTTGTCTTGTCTCCTATAGCTT
3' ss Score
10.74
Exon sequences
Seq C1 exon
GTTGGTGATGAGAAAGATATTCTACCACCAAAACTTCAGGATGACATCTTGGACTCTCTTGGTCAAGGGATAAATGAGTTAAAGA
Seq A exon
GTAAGTTCTAGGCTCCTCTTTTAAAGATTTTATGCTTTTCCAGGGAGCTTGAGGACATTATTCTCAACTTGTTTAGTAGCTTGTGTGAGGGGACTAGATACTGAATATGAGATTTTGTTTTTTAGAGATCATAGAGGATCCATACCCAGGTTCCTAGACTCCTATTTCTCTCTCTTCTTCCCTCTCTTCTCTTTTCTCTCTCCCTCCCTCCCCCACCTGCCCTGTCTGAGGCATGTGTCTCAGACTTGTAGCAGTCCTTCTGTCAGGATTGTAGGCATGAGCCATCCCAGGCTCACACTCCTATAAAATGACTTATTTACTCTGATTATATGCCTCTCCTAGGAACTTCTGGACAGCAATGAAAACCAAAATTAGAGGTGAATCTGGGTAATTTCACCCTTCTATTGATCTTCTTCTTATTATTATTATTTTTGTCTTGTCTCCTATAG
Seq C2 exon
CTTCAGAACAAATCAATGAGCATGTTTCAGGCCCTTTTGTACAGTTCTTTGTCAAGACTGTGGGCCACTATGCCTCCTATATAAAACGGGAGGCCAGTGGACAAGGTCATTTCCAAGAACGATCCTTCTGTAAGGCTGTTACCTCCAAGACCAAGCGCCGATTTGTGAAGAAGTTTGTGAAGACACAACTTTTCTCCCTATTCATCCAGGAAGCAGAGAAGAGCAGGAACCCTCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027901:ENSMUST00000183271:10
Average complexity
IR
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:
NO
A:
NA
C2:
PF0345514=dDENN=WD(100=84.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCTACCACCAAAACTTCAGGA
R:
GGAGGGTTCCTGCTCTTCTCT
Band lengths:
302-751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types