MmuINT0042904 @ mm10
Intron Retention
Gene
ENSMUSG00000060924 | Csmd1
Description
CUB and Sushi multiple domains 1 [Source:MGI Symbol;Acc:MGI:2137383]
Coordinates
chr8:15902115-15903278:-
Coord C1 exon
chr8:15903166-15903278
Coord A exon
chr8:15902203-15903165
Coord C2 exon
chr8:15902115-15902202
Length
963 bp
Sequences
Splice sites
5' ss Seq
TACGTAAGT
5' ss Score
9.27
3' ss Seq
GCCCTTTCCTTGCATACCAGGTG
3' ss Score
8.67
Exon sequences
Seq C1 exon
GGGTCTACAAGAAGGAAGAGGCCCACCTGCTTCTGAAAGCCTTTCATATCAAAGGCCCAGCAGATATTTTTGTAAGCAAGTTTGAAAATGACAACTGGGGACTCGATGGTTAC
Seq A exon
GTAAGTACTTTCATGAAGATTTTCACACAGTCCTCCCACTTTCAGGTCTGGGCAGAAGAATTCATGATCCACTGAGAATTATGGGTAGGGGAAACACTGTCCATCCCTCAGTAACTCAGAAGGTACCCCTGAAGCATGGTCACTGTACCACATCATTTGATAGAGACAACTACCAAATCTCTGAGATAAGAAATAAGTTGGCCCAGAGTTAAGGGAATCTTGCTGCTGAAGACAAACAGGTTCTTCAGACTAGGTTAGGCTCTACTGATTCACAACCCTCATTGTCAGAACTGTGAATATTCAGAGACCACCTAGAAAATGCTCCGAAGGCTCCAGACTCAGTACCAATGAGCAGAGGAAGCTGGCTCTTTCCATTTGGTGCCTTTCTCTGTGAGTTAGCCATCTGCTGTGGCCCACGTGGATAACTAGGTTCCACAGCCTCACATAATGCTCTCTGGGATGGAGCTCATCAAAGTGAATCCACAAAGGAGGATAGTCTCCATTCAGGGAGCTCGTTGACATGTGACCCTTTAGAGTGGATGATCATTTTAGGGATCAAGCTGGCATCATGACGCCACCTATGTTGCTTAACTTTTAACTCTGTACTGATTTTCAGTTTACTTATGTCACAAGAAGGAGATGGGGAAAATTCCACTCTGGGCATCACCATCAATATCTAAATCTGAGTGTTAACAGTTATCTTTGGGCAACTGAGTTTTTTCTTCTTTTTCTTCTTCTTTTTCTTCTTTTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTCCTTCCTCTTCCTCCTCCTCCCCCTCCCCCTCCTCCTCCTCCTCCCCCTCCCCTTCCCCTCCCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTTCTCCTTCTGCCTTGCCCTTTCCTTGCATACCAG
Seq C2 exon
GTGTCCTCAGGACTTGAGAGGGGAGGATTCTCCTTTCAGGGTGATATACATGGAAAAGATTTTGGGAAGTTCAAGCTGGAAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060924:ENSMUST00000082104:67
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=0.067
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GGTCTACAAGAAGGAAGAGGCC
R:
TGTCTTTCCAGCTTGAACTTCCC
Band lengths:
198-1161
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