MmuINT0042968 @ mm10
Intron Retention
Gene
ENSMUSG00000022311 | Csmd3
Description
CUB and Sushi multiple domains 3 [Source:MGI Symbol;Acc:MGI:2386403]
Coordinates
chr15:47611808-47614237:-
Coord C1 exon
chr15:47614064-47614237
Coord A exon
chr15:47611886-47614063
Coord C2 exon
chr15:47611808-47611885
Length
2178 bp
Sequences
Splice sites
5' ss Seq
TAGGTAATA
5' ss Score
6.84
3' ss Seq
TTTTTAATTGTTTACTTCAGAAC
3' ss Score
8.47
Exon sequences
Seq C1 exon
CAAAGTTTTGTGGTGATCCTGGTATACCTTCCCAAGGAAAACGAGAAGGCAAAAGCTTTATATATCAGTCTGAGGTTTCATTCAGCTGCAATTCTCCCTTCATACTAGTGGGATCAAGCACGAGGTTATGCCAAACTGATGGCACTTGGAGTGGCTCATCACCTCACTGCATAG
Seq A exon
GTAATACTCATAAAGGCTGGTTATACTCTGTAATTGCACAATCATATCTTTGAAGAACATGTAATGCTTCTCTTACCATGTAAAAGGTATAGGTGGTTAAATATGTATAAAAATATAGAACTTTTTAGAAAGTACTAGGAATGTATACTAGTGGACTATTTTATTTTTATCATTTTAAACTTCCAGAAGACTTAACTCAAATGATTTTGTCATCTATAAGTTTAATGAAAAAGAAAAGCATGTCAGAGCAGTCGTATTATTAAGTAATATTATTTTAAAATATTTTAATTTTATAAAACACATTTATATGAAATGAGAATAGCTCCAAAACATAGAGATATTTGAAGGGCTATACATATATATCAGTGATTCTAACACAGAATGCTGCACTTAAGAAATCCAAGTAGCCTCCATGCAAACAGTCAGCTGACAGAGGACTAGCCCTACCATTCCTAGGAATGAAAGTCCTACAAGTATCCGGACACTCCAAATTATCAACCCTGTTTCCATGAATAATTTTTCATTTTTTCAGGAAAATATAGCCCTATCATATCTCAAACATTTAATACACATGGATTTCTTGAATAGCTATTGTTTTCTTTAACTTTTCATTTACAGAGTGGGTTTGATATCAAGTCATTTTTTTTTTTCTGACAAAAGTTTTAAAGTTCAAGAGCTACATAAGGCATATAAATGAAGTCAAGTTGAATTTCCTCTTTTAAAGATATATTTTTAAATATTTGTATGTGTGGGTGTCTATCTGTATGTGGGTATGTCTGTGTGATTGCAGACTAGCAGAGATCACAATTGTCTGATATTTCAAGAGCTGGAATTACAGGCTGTTGTGAGAGGCTGGATATTTATGGTAGTCACTGAATCAGGCCCTACATAAGCTAATGCAGTCTCTTAGTCACTGAGCTGTCTCTCCAGCCTCAACCTGAAATTCTTGCTTCAAGATTAGGAAGCTTCTGCTGACTGGGAGGTACTGTTAGTATTATGTTCGATATTCTTACCAAGAGTATATTTGCCAAGTCCAAGATTATTTAAGATTGATATGCATTGGAGAAGTATACATGGTTACATAAATCCCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCCCCTCTTGCTTTGCTTTCTTGCTTCCTTTGAGTTTAGTACCAGTATATTAATTGCTGTTCCATTGCTCTGTGTATAAATACAATGTTCAAGGCAACTTATAGAAGAAAGAGCCTAAGTGGAATTATAGTTGGGAAGAAATAAGTGTACACCTTGGAGGCAGAATAGTTTAGGGCACCAAATGGCAGGCATGCTCTGTAGAGCAGAAGTTCCTATCTTGAATTACAAGAGTAAAGCAGAGACAGTGAACAAGAAAGGGTTTGAATCTTTAAACTTTCAAGGCAACACCCCCAGTGACATACCTCCTCCACCAAAGCCTCCCTTGCTAAATATCCCAAGCATTACCACAAACTCTGAACCAACGGTTAAATCCATAATATTATAATCCAATGTCTGGCTGGGCAGTAGTGGCGCATGCCTTTTATCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCCAGGCCAGCCTGATCTACACAGAGAAACCCTGTCTCAAAAAACAAAAAACAAAACAAAACAAAACAACAAAACAAAACAAAAACAAAAAAAGAGAGAGAGAGAGATAGAGAGAAATGGCATTGTCATCCAAACTACTTACTTCAGTGTATTTTGAACATATTCACCTCCTTAACTCATCCTAGATCTAACACCCCTTCTGTACCCATACAACTTTGTGTCATTTTTCAAATGACATTTTGTGACCAACTTCTACTGCTCCAGTTTTCTTGGAAGTGTGGTTTCAGTGGAGATTGGCTGATATGCCAGGAGCTATTCTCCTAGAAAAAACTGTCACACAGTCTATAAATTGATAATGACTTCCAATTGCTATATTGCTAAGGTTGGGATTGTGTCCCCAACTTCCATCTCTATGATCAGATTTTGTTTGACTAGATCTCACACAAGTTTAATACACTTGGTTTCAACTATTGTGAATTCATCAATGAGTGTTAATCTTTTTAATTGTTTACTTCAG
Seq C2 exon
AACCTACCAGAACGTCCTGTGAAAACCCTGGAGTACCAAGGCATGGATCTCAAAACAACACATTTGGATTTCAAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022311:ENSMUST00000162830:62
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.187
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.5)
A:
NA
C2:
PF0008415=Sushi=PU(36.4=74.1)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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