MmuINT0048301 @ mm10
Intron Retention
Gene
ENSMUSG00000027901 | Dennd2d
Description
DENN/MADD domain containing 2D [Source:MGI Symbol;Acc:MGI:2181193]
Coordinates
chr3:106488572-106490412:+
Coord C1 exon
chr3:106488572-106488641
Coord A exon
chr3:106488642-106490334
Coord C2 exon
chr3:106490335-106490412
Length
1693 bp
Sequences
Splice sites
5' ss Seq
CTGGTTGGT
5' ss Score
4.67
3' ss Seq
AAATTCTTGTCCCTCCCCAGCCT
3' ss Score
6.5
Exon sequences
Seq C1 exon
GGAGACCTTCTCATTTGTCCTGACCAATGTGGATGGGAGCAGGAAGATCGGATACTGCAGGCGCCTCCTG
Seq A exon
GTTGGTGCAATTCAGAACCGCCCCTTCCTCTCCAAGGCTGGGCTTGCCAAAGACACGGCTACAAAAGCTTAGGCTTGGTGGGAATGGTGCATGTAGGGAGAATACACATCAGCATGTGCCGCCATGTTAGTGTCCCTTCAGGAATCCCACAAGAACAAGGACGTGCTGCCCCTCTCCTCTGCTACCACAAGGCTCTGGCCTGTGTCCTCCCAGCTTAACAATTCTACACACAGGAAGAGGTTCCAGTTGGACCCTCTTACTGTAGTCTTCTGCACCCAGGCCTGCTTGTCTTGTTCCATGGAGCCTCCCAGACACTCTGAGATTTGAATGATAAGGTTTAATTCTTGGCTTTCAGGACAAGGACTCTCTAGACACCTTTATAGCCCTTTCCTCTTTAGACATTTCCTCATGGCTAAGACAAACTTGGTTTTGTTCTCACTGAACTTAAGCTCATGTTGGCCATGAGTCAGTGTTTACCGTTGGGTTACTAGCCCCAGAAGGCTGCCACTATCACCTTTTTCCTGCTTCTCCTCCCCCCTCTTCTCTCTCTTCCTCCTCATCTCAGCACATACCCATTGTATAAACAAATAGGCTTCATAGTTGGGTTTTTTTATGTGTGATCATGTATTTTATGTGTGACCATGCCCACCACACCAGTTCCTTTTCTCTTCCCAAACATTCATCTCTCTAATTTCATGTTTTTAATCCTTTTCCTTTATTATTTTAAAAGTGTATGAGTGTTTGACTGCATGTATGCAAGTGCACTGTGTGCATGCCTGTTGCCCATGGAGGACAGAATAGGGAGCTAGATTCTCTGGAACTGAGTTAGTTACAAATGGTGGCAAGCTGCAGTGTAGGTGCTGAGACCCAAGCCTGGGTCTTCTGCAAATGCAGCAAATGGTCTTAACCATTGAGTCATCTCTCTAACCCTCCTGTACCCCCCCCCTTTTTTTTTAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAATTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTGCTGGAATTAAAGGCGTGTGCCACCTTATTTTATTTTTAATTATGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTATATGTGTAAATGTGTGTGCATACCTTATGAGGTCAAAGGAGGGACATCCCCTTCGCTGGAATAAAAGACTTCAGTGAGCCATCCATGTGGGTGCTGGGAGCTGAATTTGGATCCTATGGGAGAGCAATATGTGCCCATCACCACTGGGGCACATCTCCAGCCTCTCATGTCTTTTGTTTATGTCTTCTTTTCTAAAATCCAAATCCTGCATATGAGATAGAAAATACATTCTGTGCCTAGTTTCTTTTGCCAACTGTATCCATTTGTCATAATTTCATTCCTCTTATTAGCTGAATAATACTCCATTTTGTTTATATTACACACCATCCTTTTCTTTTCAATTGTTAAAAGACATTTGGACTGGTTGCACAATATGGCAGTTGTAAACTAACCATCATCTTTTGACTTTGGTGGCTGTTTTAATCCTTCTGCTGTTCGTTTCATGAACTAATCCCATTTGTAGCACTCTACCTTTTGTCCCATTAGTCTCAAGTGGGAGAAACCCTTGTGGAGGGTGCAGCCCTAAAGGAAATTCTTGTCCCTCCCCAG
Seq C2 exon
CCTGCCGGTCCTGGTCCTCAACTTCCCAAAGTGTACTGCATCATCAGCTGCATCGGCTGCTTCGGCTTGTTCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027901:ENSMUST00000183271:4
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:
PF0345613=uDENN=FE(32.4=100)
A:
NA
C2:
PF0214116=DENN=PU(10.3=73.1)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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