MmuINT0042930 @ mm9
Intron Retention
Gene
ENSMUSG00000022311 | Csmd3
Description
CUB and Sushi multiple domains 3 [Source:MGI Symbol;Acc:MGI:2386403]
Coordinates
chr15:47681228-47689527:-
Coord C1 exon
chr15:47689336-47689527
Coord A exon
chr15:47681367-47689335
Coord C2 exon
chr15:47681228-47681366
Length
7969 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGA
5' ss Score
6.99
3' ss Seq
TTTGCTTGTTTAAATTAAAGCAC
3' ss Score
3.73
Exon sequences
Seq C1 exon
GTTCAGTTGCAACTGCCTGTCGTGATCCAGGAGTCCCCATGAATGGGACACGGAATGGTGACGGACGAGAACCTGGGGACACTGTTGTCTTTCAGTGTGATCCTGGATATGAGCTTCAAGGACAAGAAAGAATAACCTGCATTCAGGTAGAAAATCGATACTTCTGGCAGCCCAGCCCACCAGTCTGTATAG
Seq A exon
GTATGATTAAAGAATAATTAAAATTTTATAAAATATATTGCAATGACTAAGAGCTGGCATTGATGTTATTAAGCACTATCTTCAAGAAAAGTTGTTTATTTTAAGATTTCAGAGTATCTCAGAGGAGTATGTGTGTACCCAGAATGTACAAACTTAGAAAGGATAATTTCTAGTTTCTATAGTTAAAGGTTCATAATTTTATTATGTTTTGAACAGCTCAAAAGTTTTAAAATGTGATTAGTCAAATCTTCTGAAATAATGGTTCAGGCTTTATTCATTAGATAAATCTATTACCTTTTGCTTTAAAATTTAGTCACTGAGAATCTCTATGTAAAATGCACTATGTTGATTTAGTCTTTGTATTATTTCTTCTAAGAAGGTTATATCAGCAGCTATTTTAGAGCTTCAAAGGATTGGCTTTCCATTTAAGTCAGGAATATCAAAAGAACATCAGGTTTGTTTTGATGATCTGAGGAGTGTCCAGACCTTGTTCCATGCTTTAACCTGGTTGACTTCTGGCTTCATACTTGTTTTCAAATCTCTAAGTCTCAGTGTAGAGATTCAAGATCCAGAGATTCTAGCCTTTCAGTACTATATCAGGAAACAAAACAAAATAATAACAACAACAACAAAACAAGCCTTGGGAAATGACCATGTTATTCGGTATAATCATTAAGAAAATCTTATATTTTTTGAAGTATAGAATAGAGTTTATTCAGGGCATGGGGAAGGGAGTCAAGAGGGAAGTAGAGGCAGAGAAAGGCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAGGAGGAGGAGAAGGAGGAGGAGGAGCAGGAGGAGGAGGAGCAGGAGCAGGAGGAGGAGGAGGAGGAGCAGAAGGAGGAGGAGGAGCAGGAGGAGGAGAAGGAGCAGGAGGAGGAGGATGAGGAGCAGGAGGAGGAGGAGGAGCAGGAGGAGGAGGAGGAGCAGGAGGAGGAGAAGGAGGAGGAGGAGCAGGAGGAGCAGGAGGAGGAGGAGGAGGAGCCCACCATGAGCATGTGGGGAGAGAGGGCGAAGGGACAAGAGGACAGAGCAAAAGTAATAAAGTAAGACAGGAGCAAGAGAGAAAATCTTAAATTTAATTGTTCAATATTAAGATTTTCTACTCAATAAATGTCATCTTCAAGTTAATTTACAAAATATTTTCACCAAGCCAAGCTCATAGTTCTTCCCTACATTTTTATTCACATTCCTTTCAGAATTTCATTGCACCACAACAGCTTCAGGGGGGATTCTACAACTTTCTCACTCATTATTGGATTTAAAGCAGTCAGGAGAGGCAAATTTAGCATGTGTTCAATGAAAAGTCTTATTGTGATTTATTTATACTCAGCTTCTAAGTGTATTATCAAATAAGTTTCATAGCAATCTCTTTCTGAATTTCATATAGAATTAGAAAGCATGTTTTTAGTACCTCAGTCAGCAGCAAAAGAACTCAATGAATTACTGGGGCTTGTTTGCCTCCATGTTGTAATAGCTTATGTAAGAGTTTCAAAGTCAAATTCATTAGTTACCTCTTGTTTTCCATCCACTGGGAATTTAACAATAAAATGAGGAAATTACTAACTTTGATCAACCTTCTTCTCAATGAAATTAAGCTAAAAATTGTATTTTTATTACACATTTTCTATATCTTATAGGTAGGCTTTTAAAGCATAATAGTCACTAACATTGAAACCTTAATTCTTCTTTCAGGCAAAATAGAAGTTCTAGGTCTCTTTTGGAAATAATAGGCAGGAACCAAGAGTATAGAAGAGGCTTAAAATCTAAAACAAAATAATGACAGAGCTTGTTCAGATTTTGGCATATTTCTTTATATAGTTAATTTGCTATAGCTATATTTTTTATTGCTCTTTATACACTCTTGAAAGTTTTACATTTTCAAATATTGGTTGATTTATATTTATAAAATCTGTATCAATAAAATCAGGTAAGCGAAGCTATTTGAGAAATTCGCTTATGGTATGAATATTCTTATTCACTACTTCATTAGCATGTGAGACTATAAGTAAATTAAAGCTCTATATTCTAATTGAAAGTTTATTGCATATCATAAATATATGTTTCATATTCTCAAAGATTTAACAAAATATTATGCTTTTTAGAAAATAATGAAATTCCACAAAAATTGCTAATGATTGTTATTAATAGGCCAGAATATCACTTAATAGAATATCCAGGACTAAAGCATTATATAATATTATATTTTTATGTAGAATCCTAAAATATTGAACAGAATTATACTGAACCTATAGAGAAAAGAAAAGCACAGCTCAAACTAAAGTAAGTTTAAAGCATTTTGGAGAGGCTGTTACAAAATTCCATTTATAAACTGCAGTATGTTCTAGCTATAAGAACCTGAATCTAAGGGAGACAGTTGAGCACTAAATCTTACTTATGTGGAGCAGGGTGTGGAACATTTTTGTATGGATTATGGAACTGAGTATTATTTTTTGGCAAAGGATAAGATAGCTTCAAGAAATGATATGCATTAGAACTTCTGTGAGGAAGAAAATAACTTAAAAAACTGTCTGAAAAATTGCTCAGGCTGCAGAAAGCTTGACCCCTACAACTGATAAGAAAGAACTCCATGATTGGAAATACTATGACAAAGATTAAACCCTGAACTTTTTAGAAACTCTGCAAGTATGTGTCCCAGACCTCAGAGAATAAAGCATTTTACTTGCATGTGAAAAAAAAAAAATTGGCCTCATAGCAAGTACCAAATAGAAGGACGTCATCTTTAGAGAGTTAATAGAATTCATTCCAACAAAATTGACAGTGTGAAGATTACTTTGACATTGCCAGAGGGAAAGTAGCTGCACTCAATATGAAGGTAAATAACAAAGACATTAGTGTGGGTGGGTTGCTGAGAAAGACAGTACATGAATAAAATTGAATTGGCAAAAAAATTAAGAAGATGGTAAAATAGATTCATAGCTGCTGCTCGTGTTACTGTCTCAAAAAAAAAAATACACTCAGAACAAATCGTGCATGTCAGGATCCCAGAGAAGCCAACTGAAATTTAATTCATGGATGCCTTTGATTTTATTTTGGGCATTTTATGATTAGACATGTAAAAAAGAAAAACCTAATGGATTTCTAACTACTATTTAAAGTTGAAGATGTTTTAAAATAATTTTATGTATTCATTGGCAGACTAGGATTTATAAATCAGAGAGTTGTACTCTCTGGTTGGCTCTGTTGGATTTTCAAATATAGCCATAGCTATGAAATACATAAGGGAAACTTTGATAAGGTAAATAATGTACTAAAAAGAGGTTGGCAGCTCTTATCCCTAAAGAACAAGAAAGTCTTCATCAACATCCAGTAGGATTATGAATATACATATAATTAACTTTCTTTCTTTGTAATGCATTCACATGTGTACATATGAATTTGCATATAATTTCCAACAGTGCAAAGATTATTGTTTCTAGTAGCAATAAAGAAATCTGAAACTAAATTGATCCCATTCTATACACATAATCCCACTCCATAACCCCCCTAAAGACTTAAAAGGCTTATCATTCTATTTTTATATGCCTAATGTGCATATTTGCATTTGCTATTGTGCACAGCTTTGTATATCTTACATATTTGCTCATCATTCATACATGATTTTAAAAGTCCTAAACAGAAACTAAGCTGTTATTTTCCACGGAACATTAAACCACTCATTAGGCTACACATTCGTTCATACAGCTGTTACCATTCTTTTCATAATCAATATGAGGAACCATTAGCATGTAGACAAATATTTGTAGAAACATCACATGCACCTGGACAAAATAATACTGTATAAGAAGCCATCTTGACTTTTTACGTAAGTGGTGAATGCCGACACATGACAATAGTGTGCAAATGAAGAGACCATGAACATAGAGGTTGGATCAATGAGGTTGCTAGTGTCTCATAGCATGTTCAAGAAAGCTGAGGCTAAGTCTACCTCAGCCAAGAAGAAAAGTAAAGTTTTCTAAGTGTTCCTAGAGGCTTTGATACATTTCAAATAATAAGTGAAGCTACATAAGTACACACTGAAAAACATGTCAAAAGGAGGAATTATATGAAGAGAAAATATGTAGAATTATAAGATACTTAGGGCCACCATTATGACCCAGTAGGTTCAGGTGCTTGCTGCCAATTTTGACCTCTGAGTTCCGTCCCCAGAACTTACATGGGAGAAAGCGAAAAACAAATCCAGGAAGTTGCCTTTTAATCTCCCTATGTCTTGGTATAAACACACAAAATAAATTAATTAATTAATAAAATAATGTAATTTTAAAAGTAATGTTTGTAGTATTTTGAATATAATTTATTTATCCGAAGTGATTGTTGACAATATCACAAAGGGAATAGAGGTCAGGTGAGGCAGGTGCACTACAACTGGGGCATTGTCTTTTAGATTTTACAGAACTACTACGGACTTAACATTTGGTACAATGGTAAGATATTTACACTCAAAAGATAATTGTTGGAAAGAGAAGTCAGTCATCTTTACAATTCTAAAAAAACATATTATAAGTATCAATTTAGGTCAAGAAATAGCAAGTGAAGAAAATGAGACAAACTGAAGTGTATCTATGACATAGAGTCTTGATATAGCTCCTTGATAAATTGGATATGAAGATTCGCTGAAGAATGTTATGCTCCGTGCTTAATGGTGTCTGGCAATGGTGGCTCAGGCCCGTAATTCCAGCAATGGGAGGCAGAGGCAGGCAGAACTCTGTGATTTAGGCCTGATCGACAAAGTGAGTTCGAGGACAGCCAGGATAGTAACACAGATAAACCCTGTTTCAAAAAAAAAAAAAAAATCTTGGATCCAAGGTCAAAAACAAGATGAAATATATATAATGGCAATGCAAATGTAGCAACTTAGAAATTAGGCAGAGGCATTTTGACTTGAGTATTATGTAACTTTTATATTATATTATTTATGTGCCAATAGACTACTAGGTAGCAATAGCTGTAATACTTACATGATTTGTAGTTCAGCCCAGAATAACAGCAAGATGAGATAGGAAAAGGAGTTTCACATTAATAAAGAATGAGAGATAAAGTCAAGACTGTCAACATCTTCAATACAGATGATTGTAACAGAGTAAAAAATACTTTGTAAACAATGCTGCATAAGGAACTCAGGAGAATACCCAGGCTACAAAGTGAAATAGAAATTTTCATGGCAGAATTGAAGTCTGTGCAAATTCGTTAGAAGAAATTGGACATCACATCCTAGAAACTAGCTCATCAGATTTAAGGTGATGTCAAAATGTTAAAGAATAATTATGAACAGCAAGGAAACTGAGGGGCCCTCAGTCAAATTGTAAACTTAGAGACACTGAGTTGACAAGGTCTTGCCTCAGAGTTGAAAAGGTTTGTAGACAGAAAAAAAATCAAGGAGATAGTTTCAGAAAGAAAAGATTAAAAAAAGACTTTTGGCTTTCCACATTCAAAAGGTACTTGTGCCTTTCTGACAGAATTCATAGCATAAAATCTTAAGAGTTTTGTCTCAGGCACACTTTTTTTTTTTTTTTTTGCTATGACAAAAGAGCAACAACATATAGAATCAGTTGAATCTATATTCTATACTCCAGATAGAAAGAGCAACAAAAGTATCTATTGTAATTGCCTATTTTTATCAATGAAGAACTATATTTAAGGAAAAATCATAGGTTCATAGTAAGGTTCTTGAAAAGCTAACTCAGTTCCTAGATTATTACTCATTGTTACTAAATCATTTTTAAAGCCTCTTCTATAAATATAAAAAGTGATATAAGGGAAACTGTGCAAAGACAGTGAAATTAGACTTCCTTTTCCAACAGAATTTAATAAGCATAGACTTTTTATTTTAAAAGTATTATTTTGTAGGTGCAGAAAGCAGAGAACACTGAAACACATTGAAAAAGACCATTGTAACAGGGTGACCATTGTTGGCCTAGTCTTGCATGTATTGTAAGAGCAAGGAAAGAGGAAATTCACCTTTACAGAAAAGAATCACCAGAAATAGAAGAAAGAAAGAACACATGATATATCTCAGAGTTATTGGATGGCTCAGAGCATGTTGTACACTGATTTCAGTTTCTTCTCAGGGATATTGAACGCTGGTGTGAAGCTGGAGATAGGGCAATCATCAGAGGCCTAAATGAAAAAGGGAAGCTTAATCAAAGCTTGGATTACTAAAATTTTATTCATGCTGGTAAAGGAATTTGATGAACAACTGATCCTTGGGGTAGGAGGGCTTTGCAGTGTCTGTTTTTGGTCTATTCCTACTTAAACAAAAGGCAGGTGTTCAGGGATTAACTACATCATAAGTTATCTTATGGGAAAGTATGACTTATTATAAATAATTTCTATCCTTGAACAACAACAACAAAAGGCTATGGATATTACTTAAACATCAGGAAAAATTAGATATCTCTAGGTCAAAACACAGGAAGGATAGAAAATACCCTTATGGTGCCACACTTCGTTTGTGAAAAGGAAGACTTAGGGGAAACTATGAAGTAAATAAAGGTTCTATAGTACAGGAGAATTCAGGTCAGGCTGAGGGAATGTCCTTTCACAGAAGGACATTTTATTCCAGATTCAGCAGACATTTGAGTTTGATGTATTCTGTCTAACCACTTACTAGCATGTACTCAAATGGTAGAAAAAGATGCAAGGAGTTAGGAAGCAGTGTGGAGTCTCAGTCTACACACAAGGGTGGTGGCATGAAGAAACACAAGGATGGAGTTTATAAATTACTGAATTCTATTGACCCTTGCCTAGCTAGAAGGGAATTTCCTTTTCCTCCAAATTTAACTTTTGCTGTCAAAGCATCTATTTACCTTTTGACTGAATTAAATCATTACCTAGGAAAATGGTTTTAAAAGTCAGACCAGAATGTTGATTGTGTAGATGGAATCGTAGGACTATTAGACTCCTCATACCACGCTATGTTCTTCTCCACTCTTCTTTCCTACCACCAAGGACACATGTTACTTTTTGAATATAATCATATTCCTAAAAGGAAAATAAAGATCTCAGCATCTATCTGGAAACTATTTGTGCCTGTCCACTGACAAATTACAGGAAATTATGGCTAGAGCAACAATAGAATCTGCTGTAATTGCCTATTTTTATAAACCAAGGAACTAGATTTTAGAAAAAAATCATAGTCACAGTATGGTTCTTGAAAAGCAGACTTGGTTCTTAGATTATCACTTATTTTTACTCAACTATTTTTAAAGCCTCTTCTACAAATATGAAAAAAATGATATAAGGGAAACTGCAAGTATGCTGAACACTAGAATCTGATTCATTGATTACCATTTTGTCTTGTATGAAAAGGTTATTGCTGTGTAAGTCAAGCCTCCCTCATACTGGCTTTGAAGCCATTTATTATTAAAGATTTTGTTTTACTTTGCTTCCATTTTTTTAAGTAACTTTCAGATTTCTTTCCTAGTAACCATGGAGAAACCATTTTTTAATCCCTCCCCTGATGTTTTTCAGTATACTTAACACAAATGGTTTTTTTTTCTACCCTTTTTTAAAGGCTATGTTGGAAGCCAGTAAAACAAAGTATCAGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGTGTGTATGTGTGCATTTGTGTCTGTGTGTCTGTGTGTGTGTCTGTGTGTGTGTGTGTGAGTGTATGTGTGTGTCTGTGTGTATGTGCTCATATGTGTTTATGGGTGTCCTGTGTTCAATATTTTAGTGGATTCCTTAAAAGGTACACAGCCTCCCGGCATCCCAGCATCCTGTGCTGTTAAAAAGAAGTGTATGCAGTCTCACATACCCTCAAAGAAATGTTTTCACAAATATTGACAGCTAATGGATTTTATTAATCTCTTAAGGTATTTTGTTTGCTTGTTTAAATTAAAG
Seq C2 exon
CACCTTGTGGAGGCAATTTAACAGGATCTTCAGGCTTTATCCTTTCGCCAAACTTCCCTCATCCATACCCACACAGCAGGGACTGTGATTGGACCATCAGTGTCAATACGGACTATGTTATCTCCTTGGCCTTTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022311-Csmd3:NM_001081391:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.277 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=87.7)
A:
NA
C2:
PF0043115=CUB=PU(41.5=93.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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: