MmuINT0042893 @ mm9
Intron Retention
Gene
ENSMUSG00000060924 | Csmd1
Description
CUB and Sushi multiple domains 1 [Source:MGI Symbol;Acc:MGI:2137383]
Coordinates
chr8:15921729-15925467:-
Coord C1 exon
chr8:15925285-15925467
Coord A exon
chr8:15921906-15925284
Coord C2 exon
chr8:15921729-15921905
Length
3379 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CTGTCTTTGCTTCCTGACAGCCG
3' ss Score
10.04
Exon sequences
Seq C1 exon
GAAATAGTCCTGGATTTTGTGGTGATCCAGGGACCCCAGCACATGGGTCTCGTCTTGGGGATGAGTTTAAGACAAAGAGTCTTTTGCGCTTCTCCTGTGAGATGGGCCACCAGCTGCGGGGCTCTGCAGAACGCACATGCCTGGTAAATGGATCCTGGTCAGGAGTACAGCCTGTGTGTGAGG
Seq A exon
GTGAGTGATTCAGCAATCCCTGCAACCCATGACCTCCCAGGTCTTCACACCACTCACTCATCCTAAATAGCTGGAACCAGACTGAGGGATCTCTCAATGCTTTTACTTCTTGGACATTTGAACCCTTCTTCCAAAAGTTCTAAGAGCATCAGCAAAAGTTACAAGGGAACCCTAGAGATGCCCAGACTGTTCCAAGGACCTATCTCACAAGTTCTTATCATTTAAATGTTTAGCTTACAAAAGTGTGTTTCTAACCCAAAGCTAGGCTGTGACTGACGCCTTGTTGTATGGATTCTGGAGGTAAAGGAAGGTGGCTGAGAAGCCATGAGAAGAAGCAAGTCAACCAGACAGGATCTGTATGGGCTGGGAGTACTTCTGTTCTCAGAGGTTCTACTCTACACAGAAGCTACAAAGCATTCTAGGGGTCTAATCTGTGTGGCATTTTGGAATGAATGCATCTGATTTTAGTAGGAGGTAGGGATGGTCTAACTGTCAACAGTGGGTGCCATGAGTCCTTTATAGTACCAAGCCAGTGTGCAAAGTCTGCCTTATGCAAGGATAAACAGATGTGTTTGATAATGATATACTCAAAGTTCAGAAAACAGCATCAGAATGTAGGCAAATATTCCTTTAACTAGCAGCTATCCCTTTAACTAGCAGCTATCCCTCTAACTAGCAGATAGCCACCTAAGCCAACATCTCAAGTTTGGGGTCTCAAAAAGGTTATACTGCTGTATTTTGTGTGTGTGTGAACAAATTTTTTCTCTATAATTTGGAATACTTGAAAAACTCTTATATTATCCCCACTGGGGACTGAATCTCCACAAGTATTAAGCAAGGCTCCAGGCACGAGTTCCCTAGTCAAGATTATTTCTAGCCTGATGTAACTGGCTCTTCTCAATCAACTAAAAACCTTACTTCCCCATGGGAAATGGGAATGAATTTTAAAGAAACTCACAAGTCACGAAAGAAAAGAAAGAAAATCTTTTAAGATGTTCATAAAGACCAAATAACATATAACTTTGATATTTTAATATTACATATCTGTAGATTTCTATTATATTATCTTAGCTTTGGCTGGTAATTGGTCTTTTAAGCACACTCTCATTATCAAATGCTTCCAAGGTCCTCACTCAGGAAATTGCTTCACAATAATTATGTCATGTGACTTAAGTTTCATTGAGCAAATCTTTATCGCTTTTTCATAATTTTGATAGAATCTAAAGTCAACTAAAGCAACGTAAATGTAGTATTGATGGAAGTAAAATGAACTAGAAGCTGTCTTGTCATTACCACTAATAGCCAGAACATGAAACCTTCCACATATTACAGCAACTGGGAAGATCTTATCTAATCCCCTTTACAGTTGATTACATTATGTGTAGAGTTTGAATCCATTGTCTGTATAAACTAATTTAAAAAAAGACAGAGCTCAGTATACTGCAACTGCCATGTGTCTAATACAACATCCTAGGTGGGCTCCGCTGATATTAAGCAAGAAAATGTTCATAATTAGTTGTTACATCTTGCTGTAAATTAAGTAAGACAAAATTGCATTTTAGCAAAACAAGTCACATGAAGAAGCTCTGAAGCAGAAGATGGGTTTTCAACCGTAAACAAAGAATGAAACTTGCAAACACAGAATATGGTGAAGTCTTACCTTATAATTTACAAAGTATCTTTGTTTTTGTTTTTGTTTTTTTTTTTTTTGTTAACTGCAAATAGTACAAATTTCCTTTAGTATCACAGCCACTTCTATCCTGTTATTAATATCACTCCAAAAACACAGGCTTACACTGCCTTCTATCTGCATCCCACTGGTATGACAGGCAATGGATGCATTTCTTATTGTTAAATAGAAAAGAAAGAAAAAAAAAATCTGATTGTAAGTCTTACTTTATAAAATGCAATATTTAAAGGGAGATGTCTCAATGTTCAGATAATGTCATCATCATAGAAACATATTAATATATATTTGCTTACAAGATAAACTCTTATCAATTAGTTGATGCATTTGGTCCTGCATAGGTGACTTGGAAACTTGTATACACAGATTATTTTAGCTAATATGATCATGTAGAAATGGTACTATCATCTTTTGTTGATTTTTGTAGGTTCTGCTTTAGACTATGTATGCTCACTTTTTAGAGAGAGACAGAGAGACAGAGAGAGACAGAAAGAGAGAAAGAGAAGAAGAGAGGGAGGGAAAGAGTGACGGAGGGAAGGAGAGAGGGGGAGAGGGAGAGAGATACTTTCTATCAGTACAACGACACAGTAGCTATGACTTCCCAGATACTAAACAAATGTATATTGAATGATTATTGATTAGTTATGACTGACATGGGCACTGATATGAGTGCTTTGTATTTGTTTTACAAAAAGGAATCAACTCAACTCTAGCTTATGTGTATATTCTACATGAAGTAAGAACTAACAGCTCTCTTCCATGTGTGATGAGAAACGCATCTTTCTTTGTTCTCCGGACTAGCTTTGAAAGTGGACCAACTAAATATGCGAGAATATTTTCAAATATGATGACCACTTTCAGGGAGTTTCATGCTGTAGTCTCCTTGTTACTACCCAGTAGTTGTCTCATGACTTACTGTCTTCTCTGGCAATTCATTGTAACAGGGTTGAGGTAAAAAACAATTATTCTGATAACTGTCTCAAATAAATATGACAAAAATCTTAAACACTGAAGCCATCATTATGGTCTGACCCAGGAGACGGCTATGCTTCTCCTGTGTGCTGACTAAGGTGCACACAGTGAGTGAGAGTCCTGCCAGTTGCATTGAGCACCGTTAACTGAAGTTTCAGTGCCTATAGGGGACATTTAAGATACTTGTGAGAGTAATGCAAAATGAAGGCACATGTCAATCAATTATTCATCTGTGGGTTGATTCATAACACATGGGAGACAACATTCTAATAGGTATAGTCATCTATATTTCTGAGATATTCTCTAAATCCCAAGTGAACTCTCCTGGGGACATAACATATGGCTTTATTTTTTTCCAGATTTCCCACAAATAAAGAATGCTATGAAGGAAGCTGTGCTTGAACTCTAATACCGTATAGTACTTTTTAAAGTTCATGATAACTCTACCTTGCTTTAAAAAGTATGTTCAAGCTTAGAGAAGCAAAGCTTTGGGTTTTGGATGCTTTACATCGTATTTTGATCAGAAAGATGTGAAAGTATAGTTTTAAGTTTTGTAACCAATCACAAATAAATCTGAGGGTCAGGTAAGACAAATTCTGAACTGATCCCATACACACATCCCCACATTCCTGTAAGGAACCCACCCTCATTGGCATCCCCCCTTTTAAGCTTCCACCCTAGCTTACTCCCTTGCGGGCTACTGTCTTTGCTTCCTGACAG
Seq C2 exon
CCGTGTCCTGCGGAAACCCAGGCACGCCGACCAACGGGATGATCCTCAGCAGTGATGGGATCCTCTTCTCCAGCTCTGTCATCTATGCCTGCTGGGAAGGCTACAAGACGTCGGGGCTCATGACTCGGCACTGCACGGCCAATGGGACGTGGACAGGCACAGCTCCTGACTGCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060924-Csmd1:NM_053171:57
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=87.1)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.7),PF0279317=HRM=PU(82.5=55.0)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: