MmuINT0048296 @ mm10
Intron Retention
Gene
ENSMUSG00000027901 | Dennd2d
Description
DENN/MADD domain containing 2D [Source:MGI Symbol;Acc:MGI:2181193]
Coordinates
chr3:106486050-106487048:+
Coord C1 exon
chr3:106486050-106486320
Coord A exon
chr3:106486321-106486872
Coord C2 exon
chr3:106486873-106487048
Length
552 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
CCCTTGCATCTCCATTTTAGGAC
3' ss Score
11.15
Exon sequences
Seq C1 exon
CTAAGCTGCCTCGTGGGTCCTTTCACATCCTTCTTGCTCAATTACGGAGTACACAGGATGGAAACTGCTCTCTGCCTTTGGGAGACAGCGTGTGGCTCAGCTCAATAAAGTTGTGATTGGAGACCAAGGCAGAAGGCACTTTCTCAGGCTTTCTGTGGCCAGCCTGAAGGAGAAAGAACATCCATGCCCCCAAAGCTCAGAATGATGGAAGGACAAGGGGTAGGCCGAACCCTCAGGCTGCTCCGAAATCGCTTGCCACGACTTCGAGCAG
Seq A exon
GTCAGAACTGGATTGCCTACTTCCTTTTTCGGATGATCTTTTTATGGGCTGATTCCTGCTGTAGTGATCCTCTTTTTCCTTTATATGCTCAAACCCACATGGCCCCCATGTGGTCAAGCCAGGAGGATTGCCTTATCAGTTTGCAGAGCTAGTCCCGTCTGTTGCAGAGGTCTTGCTATAATTACCAAAAAATGCCCTATGGGTCTACTCTGATTATTTAGTGCAAATTTACTCAGGGCTCACAAAATACCCAGAACTGTTGCATCAGGCAGACTATACAGTGTCAGGCATCAGGCCTCCAAGAACCTCCACAGCATGGCATGGCTCCTCGGTTCTACATCAGTGTTTTCTTTTCTTCCTGTGTCACTCCACAGTTTCAAGTTTCCCAGGGCAGGTATGGAAATTGCCCCCTTGGCTCTGATCCTGCCTGGTGGTGCCTGGTCAGGCTTGGCACTGTAGCCTTGAGGCATGGTTGTTGCCCAGATTCTCGCTCGCACTACAGAATGGAGGAGTGGAAAGAATACTCAAGAGACCCTTGCATCTCCATTTTAG
Seq C2 exon
GACAATCCCAGAACAATCCTGGGGAAGCTGTCACAGAGCCAGAAAGGATCCAGGAGCATTCTCCATCTAGCTTTGCTGGAGGCCAGCACTTCTTTGAATACCTTCTTGTTGTTTCTTTAAAGAAAAAGCGTTTAGGGGATGACTATGAGCCCACGATCACTTACCAGTTTCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027901:ENSMUST00000183271:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.567 A=NA C2=0.432
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0345613=uDENN=PU(12.7=15.3)
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:
TCGTGGGTCCTTTCACATCCT
R:
GCCTCCAGCAAAGCTAGATGG
Band lengths:
344-896
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