MmuINT0053405 @ mm9
Intron Retention
Gene
ENSMUSG00000032087 | Dscaml1
Description
Down syndrome cell adhesion molecule like 1 [Source:MGI Symbol;Acc:MGI:2150309]
Coordinates
chr9:45480709-45482806:+
Coord C1 exon
chr9:45480709-45481005
Coord A exon
chr9:45481006-45482533
Coord C2 exon
chr9:45482534-45482806
Length
1528 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCCT
5' ss Score
4.01
3' ss Seq
TTTCCCCCCACATGCCCCAGGAC
3' ss Score
7.98
Exon sequences
Seq C1 exon
ACGGCACGCCCCGCATCGTCTCATCCTTCAGCGAGAAGGTGGTCAACCCTGGGGAGCAGTTCTCACTGATGTGTGCCGCCAAGGGCGCCCCGCCCCCCACGGTCACCTGGGCCCTGGACGACGAGCCCGTTGTGCGGGACGGAAGCCACCGCACCAACCAGTACACCATGTCCGACGGCACCACCATCAGCCACATGAACGTCACGGGTCCCCAGATCCGGGATGGGGGCGTGTACCGGTGCACAGCGCGGAACTCGGTGGGCAGTGCTGAATATCAGGCGCGAATAAACGTAAGAG
Seq A exon
GTGCCTGTCCACATTTAAATATCAGAATAGGCTTTTGAGTTCCTTTGCCATCTTTGTGGTCACTGTCATTCTTGTGTGCTTCTTAGTAATTGTCATTTTGATTTTAGTGGAGGTCTGTCTCTCTCTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTTCCTCTCTCTCCCTCCCTCTCTCTCTAACCTGCCCACCACAGTCCCATCAACCATTTTTGTGTGTGAGTGTGTGTCTGGTGCAGTCCACCCCATTTTCTTTCCCCTGCCTCCTCTTCCCTCCCACAATCTAGTCTGCACATCCTCCCGATCCCATCCGCCCCATCAAATCACTCTGGGCCCCCCAGTGCTCTACGCACCTGCTAGCATCTGCCAGCCCCCAGCAGGGTCTTGAAAGGACAAAGACAGAAATAGGGCATACTCAACCTTAATACTAGTGAGTTCCCAACATCCTCCACTGAGCCAACCGTGAAATGTCCCTAGAAATGTAGGCAGTCAGGGGCCCTGAGATCATGTTCTCACTACAAGGCTCAAGCCTTCAGGAGTGTGACATCAGAACTGGACCCCCATGAGTTGGGTAATTCCCAGAGATAGGCAGCCGCAGGAATAGGAGAAGGGCCCATAAGGTATTGACCACACCCTTCGTCAGTTCTCCAAGTTAACGTGCTGAGAGTAGTCCCCCTGATGCTCTGCAGCCTTCTGGATCTGACTGGTCCTCTCCGGACCCTACCAGTGACCTCTAACCCAAGGACATAGGACAGAGAAAGTGTCAGGAATGGACACTGGTCCAGGGATGCTAACAGTTGTCCTGAGGCAGAGACGGGGTAGAGATGGAGATTCAGTCTAAATTCACCCATGTCAGCTCCCCCACGCCATATGACAAATCTGAGCCCACTACCTGGCCAAGCCCATGTGTCCCTCTCTGAACTGGAGCTATGCTATAGGGCCCTGGAGGGAGACTCTCTAGTTCTCTCTTGTATCTTCTGGATGGGGACCTGAAGTACCGGATTTCCATGATGCTCTCCAGTACTGTCCCTTAATGGTGACCTCTAAGCTTCCTTCTCCCACTCCCATGGTGCCTCCTGTCAGTCAGCCCTGCTGAGGATACTCCCAACCCCCAGCCACTATGGTCAGAACCTCACTTTGCAGCCCGTTCTCAGGTACCCGCAAAACAATTTTCCTGACTGGAAGAAGCAACATGTGGTGGCTATGGATTGACCTGGCCCAGTCTTGTAAGGGACAGGATTCTTGCAAGAGGCCTGTGTGGCTCACGGCTGTTTACAACTATCTTTCAATGACAACAGTGAGTTCTAGGAGTCTGGTGGGTGACTCCAATCCTGACCTCTGCACTTAGCTAAGAAAGCAACCTCTCTGCCCTCACCTGTAAGGTCTCTTGCCCCAGGGGAAGTCTCAGGGCCAAGCAAGGGAGAAGAGCCCCACTACAAAGTGGCATTGGTTCATGACGCCACCTGCCCCTCCTCTCCTCTTTCCCCCCACATGCCCCAG
Seq C2 exon
GACCCCCCAGCATCCGGGCAATGAGGAACATCACGGCAGTCGCCGGGCGGGACACACTCATCAACTGCAGGGTCATTGGCTACCCCTACTACTCCATCAAGTGGTACAAGGATGCCCTGCTGCTGCCCGATAACCACCGCCAGGTGGTGTTTGAGAATGGGACTCTCAAGCTGACGGATGTGCAGAAGGGCATGGATGAGGGGGAATACCTGTGCAGTGTTCTCATCCAGCCACAGCTTTCCATCAGCCAGAGTGTCCACGTGGCCGTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032087-Dscaml1:NM_001081270:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.270 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=WD(100=95.0)
A:
NA
C2:
PF0767911=I-set=WD(100=96.7)
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:
CCAACCAGTACACCATGTCCG
R:
CATCCATGCCCTTCTGCACAT
Band lengths:
342-1870
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: