MmuINT0053348 @ mm10
Intron Retention
Gene
ENSMUSG00000050272 | Dscam
Description
Down syndrome cell adhesion molecule [Source:MGI Symbol;Acc:MGI:1196281]
Coordinates
chr16:96715339-96716154:-
Coord C1 exon
chr16:96716058-96716154
Coord A exon
chr16:96715468-96716057
Coord C2 exon
chr16:96715339-96715467
Length
590 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TCTTTCTGTTGATGGCACAGAAC
3' ss Score
5.13
Exon sequences
Seq C1 exon
ATTTTGCCAACAGTGAGAGAAGATTCCGGTTTCTTCTCCTGCCATGCTATCAATTCATACGGGGAGGACCGTGGAATAATTCAACTCACAGTGCAAG
Seq A exon
GTAAGGCAGGCACGACAGAAGGAAGTGTGTGGCCATTTCGAGACAAGGTGTGCTGACATCAGGCAGCATTGCAGACCCAGTCAGCTGGGAACAGTTTGATCTCTCAGGAAATCTTGGCTCTGCAGAAAGTTGGCATAAATCTGGACTTTATCAGAGGCTGTGATCATGTCAGGGTGAAGCCCTGAAACATGGGGAGCACAGCCCTGGCGGGGACCAGGGCAGGTGAGAGGCCAGACCTCAGGCTGAATGTAGACGAGCTTGGCCAGTGCTTTCCACTCCTTGGGAGCTTGTACGCTAGAAAACTGAAATGGAAGTCCAGCATCTGGGGATGAATGTTCTGTGAGTCAGAGTAGTGGCACTTATGTCCTCCAGGTCTGTCCTGGTGCCACACGGGCTAGAAACAGAATCTCTTGGAGAAGTGAGGCAATGCCTTCTATCTAATCAGGAAAAAAAAAAAAAAACCAACCCACCGGGCAGCACCTGCAGATGCCTAATGCCACAGAAGTATGCAAGCTGTAGACAGGTCTTCCACTAGAGTTTATGCCCAGGCTTGATGTGAACTAACCCTGGTCTTTCTGTTGATGGCACAG
Seq C2 exon
AACCCCCAGATCCTCCCGAGATTGAGATCAAAGATGTCAAAGCTCGCACCATCACGCTCAGGTGGACCATGGGGTTTGATGGCAACAGCCCCATCACAGGCTATGACATTGAATGCAAAAATAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000050272:ENSMUST00000056102:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.386
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(31.6=90.9)
A:
NA
C2:
PF0004116=fn3=PU(47.1=93.2)
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:
ATTTTGCCAACAGTGAGAGAAGA
R:
TGCATTCAATGTCATAGCCTGTGA
Band lengths:
214-804
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