MmuINT0053380 @ mm9
Intron Retention
Gene
ENSMUSG00000032087 | Dscaml1
Description
Down syndrome cell adhesion molecule like 1 [Source:MGI Symbol;Acc:MGI:2150309]
Coordinates
chr9:45510407-45510739:+
Coord C1 exon
chr9:45510407-45510503
Coord A exon
chr9:45510504-45510610
Coord C2 exon
chr9:45510611-45510739
Length
107 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
CCTCTTCTGTCACTGCCCAGAGC
3' ss Score
7.95
Exon sequences
Seq C1 exon
CTCAAGCCAGCTGACCGTGGGGACTCCGTGTTCTTCAGCTGCCATGCTATCAACTCATATGGAGAGGACCGAGGTTTGATCCAGCTCACTGTGCAAG
Seq A exon
GTACGTTCACCTGCCCACCTGCCCTTTCACCTTCCCTAGGGCCCAGAGGCCCACAGCTAAGCTATCTGCTACTATCTCACCTTTGTTCCTCTTCTGTCACTGCCCAG
Seq C2 exon
AGCCCCCTGACCCCCCAGAGCTAGAGATCCGGGAGGTGAAGGCCCGGAGCATGAACCTGCGCTGGACTCAGAGATTTGATGGAAACAGCATCATCACCGGCTTTGATATTGAATACAAGAACAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032087-Dscaml1:NM_001081270:13
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.209
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(31.2=90.9)
A:
NA
C2:
PF0004116=fn3=PU(47.1=93.2)
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:
CTCAAGCCAGCTGACCGTG
R:
TTCTTGTATTCAATATCAAAGCCGGT
Band lengths:
218-325
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: