MmuINT0053373 @ mm10
Intron Retention
Gene
ENSMUSG00000050272 | Dscam
Description
Down syndrome cell adhesion molecule [Source:MGI Symbol;Acc:MGI:1196281]
Coordinates
chr16:96819724-96821039:-
Coord C1 exon
chr16:96820743-96821039
Coord A exon
chr16:96820000-96820742
Coord C2 exon
chr16:96819724-96819999
Length
743 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCTT
5' ss Score
3.62
3' ss Seq
GCTTTCTTGTGTCTCTCCAGGGC
3' ss Score
11.81
Exon sequences
Seq C1 exon
ACGGAACTCCCAAAATCATTTCTGCCTTTAGCGAGAAAGTGGTGAGCCCGGCAGAGCCAGTGTCCCTCGTGTGCAATGTGAAGGGTACACCCTTGCCCACGGTCACCTGGACCCTGGACGATGACCCCATCCTCAAGGGCAGCGGTCACCGCATCAGCCAAATGATCACGTCCGAGGGGAACGTGGTCAGCTACCTGAATATCTCCAGCTCCCAGGTCCGGGATGGGGGTGTCTACCGCTGCACTGCCAACAACTCGGCTGGAGTCGTCCTGTACCAGGCTCGAATAAACGTAAGAG
Seq A exon
GTGCTTGTCAAATCAGCTCCTCGAACAAACACACACAAATCATTGTAGCGGGATGGGTGCTGCATGCTCTGGGCTGAGCCTTGCAATGCGCAAAGGAGGAGCTGTTCCTCCCTCTCCCTGCCCTCTCCTTCCTACTCAGGAATGGCGCTGATCGGTGGTGTTGAAAATGGCATTTTGGTCTCTGTAGTCAGCTTGTCTACTTTCTGTCCTCTTACATCTATCCACTGAAACTCTCCTTTCCTGGTTTATGCTCTGCATGCCCTTTCCTCTCTCCGTTTCTCCTTTCTCATGACATCCATGGTAAGCCTTCACATCCATGGTACCTAACTCAAGTTCATAGTGCACAGCCGCATAACCTGCATCTTCATCATCCACCAGACAGAGTCAATCAGTTACTCTTAGCCTTTTCACCAGAAGACCATAATGGTGCAGAGTAGACTAGTTACTTTTTGTTTTTTAATTAGTGACGCTGTCTTTTATCTTGTACTTCAAAGTATTTTCATAGACGTAGCTGGTAATGAGAGATTTTAACATTCATTGACTCATTTAAGAGTAGTAAGAAGAAAAATAAAACTTTTCCTTCATAGTAGAATATGCCAAATGCCAAGAAACTGAAACAAACAAACAAAAAAAGGTGTGCTTGCATAAAAATAATTTATTTTCACCAAAGGAAAGGTGTACCCATTTCTTTCCATGAGATGTACCCTTAAATTATTTTCAAGAGCTTTCTTGTGTCTCTCCAG
Seq C2 exon
GGCCTGCAAGCATCAGACCAATGAAAAACATCACTGCGATAGCGGGGCGTGACACGTACATCCACTGCCGCGTAATTGGCTATCCGTATTACTCCATCAAGTGGTACAAGAACGCTAACCTGCTTCCTTTCAACCACCGCCAGGTGGCGTTTGAGAACAATGGGACTCTGAAACTCTCTGATGTGCAGAAAGAAGTTGACGAGGGAGAGTACACGTGTAATGTGCTGGTACAGCCACAGCTCTCCACCAGCCAGAGTGTCCACGTGACAGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000050272:ENSMUST00000056102:7
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:
PF0767911=I-set=WD(100=95.0)
A:
NA
C2:
PF0767911=I-set=WD(100=98.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAATGATCACGTCCGAGGGG
R:
CACGTGTACTCTCCCTCGTCA
Band lengths:
356-1099
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