MmuINT1007770 @ mm10
Intron Retention
Gene
ENSMUSG00000028804 | Csmd2
Description
CUB and Sushi multiple domains 2 [Source:MGI Symbol;Acc:MGI:2386401]
Coordinates
chr4:128563279-128564224:+
Coord C1 exon
chr4:128563279-128563417
Coord A exon
chr4:128563418-128564008
Coord C2 exon
chr4:128564009-128564224
Length
591 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TCACTGTCTCCTATTCTCAGGAG
3' ss Score
9.06
Exon sequences
Seq C1 exon
ACCTCAGGCTGTTGGAGTCAGATCCCGAGTCCATCGGCCGGCACTTTGCTTCCAACAGCAGCTCAGTGGCCGCCGCCATCCTGGTGCCTTTCATCGCTCTCATCATCGCCGGCTTCGTCCTCTATCTCTACAAGCACAG
Seq A exon
GTACTGGGAAGCCGTGATCCAGACCTAGTACCCCAAAGGCAGAGGCCAGGGAGAGCAACTGTATACCCAGACCTAGTACCCTGAGGGTAGAAATCAGGGAGAGCAACTGTATACCCAGACCTAGTACCCTGAGGGTAGAAACCAGGGAGAACAACTGTATACCCAGACCTAGTACCCTGAGGGTAGAAACCAGGGAGAACAACTGTATACCCAGACCTAGTACCCCAAAGGCAGAGGCCAGGGAGAGCAACTGTATACCCAGACCTAGTACCCTGAGGGTAGAAACCAGGGAGAGCAACTGTATACCCACACCTAGTACCCTGAAGGCAGAGGCCAGGGAAAACAACAGTGTACCCAGTTCTAGTACCCTGAAGACGGAGGCCAGGGAAAACAACAGTGTACCCAGTTCTAGTACTCTGAAGACGGAGGCCAGGGAGAGCAACTGAGCACCCAGTCCAGCCCAGCCCACCCTACCCTACCCAGCAGACTCAGAATAATGTAACTTGCTAAAGGGAGAAAGGACCCCCTCTCCTCTCTTGCTTTGGATCCCGTGTCATCTTTGAATTCAAGGTCACTGTCTCCTATTCTCAG
Seq C2 exon
GAGAAGACCCAAAGTCCCATTCAATGGCTATGCTGGCCACGAGAACACAAACGTGCGGGCCACATTTGAGAACCCCATGTATGACCGCAACATCCAGCCCACAGACATCATGAGCAACGAGGCGGAGTTCACAGTCAGCACGGTGTGTACTGCGGTATAGCCCCCAGGCCTGGCTGCAGCTGCCACCGCCACCGAGTGCCCCGCCGCCAGCAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028804:ENSMUST00000184063:69
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=0.094
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCAGGCTGTTGGAGTCAG
R:
GGGCTATACCGCAGTACACAC
Band lengths:
302-893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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