MmuINT0042906 @ mm9
Intron Retention
Gene
ENSMUSG00000060924 | Csmd1
Description
CUB and Sushi multiple domains 1 [Source:MGI Symbol;Acc:MGI:2137383]
Coordinates
chr8:15892545-15900805:-
Coord C1 exon
chr8:15900673-15900805
Coord A exon
chr8:15895877-15900672
Coord C2 exon
chr8:15892545-15895876
Length
4796 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
GTTCTCTCTTTTCTCTTTAGAAC
3' ss Score
11.08
Exon sequences
Seq C1 exon
ATCCTTCCAACTCCGATGCAGATTCTTCAAATCACTACCAGGGCACCAGCAGTGGCTCGGTGGCAGCTGCCATTCTTGTTCCCTTCTTCGCTCTAATTCTATCAGGGTTTGCATTTTACCTCTACAAACACAG
Seq A exon
GTACTGCAGGGATGTGAGTCACCTGCCCGTGTTCATGGCATGCTGCATTGGTGTGAGCAATGTCATGCTTGAACTCACATGCACATAGGTTGGCACTGAGTGTGGCTGTGTTTCCTTATATATGGGTGTGCACACACCAGGCTTTCTGTTGATGATTTTTATTTTGTTCTGTTTTCCATTGTTTAGCTTCATCTATTTTGTTAGCAGGGCACATCCCAGTAATAAGCTTTAAAGGAATGAATTTGAATAATGGTAGCCAGCCACGGGAGAGTTGTATCCTCTAGCAGGAAAGAATGGAAAAAAAAAAAAAGGATTCGATACTGTGGCTCTTTCAACTCTATGAATCAAAGATATATATCTATAGAGATCTATAGATCTGTAGATCTGTAAATATAGAGAGATATATGGCTTTTTTCCTTCAGCAAAATAGAAAGTTCTTAATATGCCTGAATAGTCATCTGCTCCCCATCACTTATATATTAACATCTATTGACTTGAAAATACTTTTTAATGAGAAGACTTCAAAACTTAGGTGTTTTGATCAAACTCAAATAAATGGGCTCCTTTCTTTGGTGTTAATATGCATGCATACACTTTTTAAAAAAAAATAAAAGAAGCATTATAGGCAGACTAGGGATGGACTCTATTGATAGAGCACTTGTGTAAGATGCTCAAGACCCTGGTTCCTATCCCATTGCATGTCTGAAATCCCAGCGTCTGGGAGGTGAAGAAAGGTAGACCAGATGTTCAGTGTCATCTTTAACTACAAAGAGAGTTTAATTCTAGCCTGGGCTACAGAAAATCCTGTCTGAAATGAACACTGGCTGTGGAGGATTCAGTTTGTGTGTTTTCTCTATGTAGATAATATATATCTGGGAAAACTTGCTATATGCCAAATCATTCCAAAATTCTATTTGAGATGTTAAAGTAGTAAAGTTTTATCAATATAGTACAATTATGACCTCAGACATGATGTTAACACTTAAGTGTATCACGTCTTTGCTTATTTAACACACAAGTTTCTACTTAGTCATTATTAGACAAATAAAGCTGAAGTGAGGATATTTTGTAGAAAGTATGCAATAAACTTCTTTAAATGTATACTACCCTACACTTAAGAAAACATGATATCCAAAGACTATTCATAGTTCGTAGCTATGGGTTTCTGTTTGTTTGTTTGTTTGTTTGGGGTTTTTTGTTTTTCTTTTCCTAATGGCTATCAGTGTTCTAAGTTTACAAACACAACTACAGGAAAGAAATAGCAGATATTAGCCACTTTCTGCACACCTTGGTTCTAGGGCACAAAGAAAGAACAGACATGGAGAAATGTATACAGAAAAACTGGGCTGGTCATCTGTGCACAGCAGGAACAGTGCTAACCGTGCAATAACCCAGACCCTCAATACATTCATCACAGGGGGAGGGTGAGGGGGTTTGTCTTGGTTGGAGGTTTCTATAAGGGAGCAGTCTCAGGTTGCAGCCATTCTGGAGGAGGAAGCTGCTACTTTTAGCACCCACTGTCGTGGACCAAAGAAAGGCTTTGCCATCCCTCTAATCATTACCTTTATATGGAAGGCTTTACCACCACTGTGCAGTAGAGTCCTTGGGTCCTTGATATGGCTATGCCTGTGTCAAACAATATACATTTACAAAAAAGCTTCCTCTGCTCGTCACAGACTTATAACTACCTTGTTATCAATTATTTTAAAGATTATAGTACCCTAGGCAACAGGTCCTGGAGACTTAGCCTGTCTTTCTTCTGATGTTATTGCAGCTGCCATGTGCCACGCAAGACCACATGACAGGAAGCACTTTTAAAGAGGCAGGAATTAAAACCCTTCTTATGGAGTTCCTTCTGTGTTGACAGCAACAGCAGAGATTCATAATCCCTGTAAATTCTTTTAGTGTCCTCACTGCAAGGACAGGTCTGGCCTGTTAGAAAGGCTTTTGTACTTTTGACCCTGTTGGGTGTGTTGCGAACCTCTGGTCCTCTCTCAGACCTGAGACCAGCTGGACAGTTCTCTGTGTGTCAGAGAATCAGGCCCCAGGCTTTCTTAGAGAGGCTAACACCTCAGTGGTTCAGAATCAATTGCCCTTGACAGTGGAACTATTATATAAGCATCTATACTCATCCATGAGTTAAATGAGTTCTGGTTGTATCTGAAGTATGCAACAGGGTGCCATAGGTTAACTCAGAACATTACAGCATGTGTCTTTAAACCCAGGAGCTTCCTAGCAAGTCCCAGATGTCAGGTCAGGTACTTCCATGATGTGGAGAGATGCTTCCATATTGAGATACCAGCTAGATACAAGCTATCAATCCAGTGAGTAGAGCCTTCTGTGTCACTGTGATGGTTCACACACACACACACACACACACACATCTCAATCCATACACGCTTAGAGGACTGCATGGTGAATAGAGAGAGAAGCCATGTTTCCCTCACAGGTTCACTGGGGAAACTGGGGCTGTTGTGATGAGCAGATCCAAAGAACCCTTTATCTCTCTAGACCCTGCCATATAAGAAAGATGAATACTTTTGAAAAAGAAAGGATGTGGAGAGCCAGAGTCCCGCCCTTCACTGGGTACTTTTCTATTGAGTCCTTGGTATGAGCACTTATTATTTTGGGTTCCCTGCTTCATATTTCAACTCCAATAGACAAAGATATTCCTTAATGATGTGGCTGGGCATTGCTTAGCAGATACCCCAAATTCCCCACATGTTGGAGTCCCTTTCCCTCTTTCATCCATATTAAGAAGAGGTTCTCCAAATGCAGAGACACACGACCAGTCATTAGGTAGTGCTTCGGTAATCCTGCTGAAGAAGAGGAGGGAGGATTGTAGGAACCAGAAGGATCAAAGACACTACAGGAAAACCTACAAAATCAAAACATCTGGACTCGCAGGGCCTCCCTGAGACTAACAATCAGTGAGCTTGCATGGGCCTAACCCAGGCCCTCTGTATATGTTCTTGTTGTGTAGCTTGTTTTTTTTATGGGACTCCTAACAAAAGGAGCAGGGGCTGTTTCTGATACCTTTTCTTGCATTTGGGACTCTTTTCCATCTACTGAGTTGCTTCATCCAGCCTTAATATGAGGGAAGTGCTCAGTCTTACTGCAAATTGATATGCCATGTTGGGTTGCTATTCCTGAGAGTTCTTCCCTATTTTGAAGGGAAACTAAGGAAGAATGGATGGGGAGAGAGGTGAGAGAAACGACTGAGAGGAGGAGAGATAGGTAGATCTGCAGTCAGCATATAATATGTGAGAGAATAAATTTAATTTTAAAAAGTCAACAGAAGAAGCAGAAACAGAAAAAGAAAAGAAAAAGAAGAGGAGGAAGAGGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGAGGTGGAGGAGGAGGAGGAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGAAGGAGGAGGAGGAGGTGGAGGAGGTTCTCTGACAAAGAGATTCTCTGTCAGAGCCCATGGTCCATATGCAACCTGCCGCACTGAGATAGGTCTCTTGTGTGGTGTGTTTTAGGGTATATGGGTATTACATGTATATTTTTTAAAGTTGGTATGTGCAGATATGCATCCAGGTGTGCATACATATGTGTGTCTCTGAGTAGGCCTGGGGTCTACATTGGGTCTCTTCTTTGTAGTTCTTCACCCAATAGCTCACTTAACCCGGAGTCATTGATTTGGCTAGGATGACCACGAGCCGGTGAGCCTCAGGCATCTGCCTGTCTCTGTCTCCTCAGTGCTGGGATTACAGATGTACACCACTGCATCTGGCTTTTTATGTGAGGATTTGAACTCAGGTCCCCATGCTTGCGAGCTGACGAGGTCATCTGCTTATCCCCGCATTTAGATCTTTTTACCCTAAAACCTCCCTTTTAAGCATGGGTTGTGAGTTAGAGGGTTTCCTTAACCCACAGAAACATAATACATTTCATTTCAATAAACCGGCCCTTTAAATCTGTATATATTCCTGTGCTTTATGTTTGCCTGTGTGTACAGTGCCCATGGAGGCCAGCAGAGGGCACTGAATCTCTTGGCACTGAAGTAACAGGCAGTGGTGAGCTGCTCTATAGGTTCTGAGAACAAAACCTGGATCCTCAGAAGCAAGCACTCTTAACTGCCAAGCCATTCCTCCAGCTAAACAAGGTGGCTGATTCTGACCCATCAGGGGATGAAAAACTGCATTGTAAAAGTAATCATCATTTAGTGAATTCTGCTAGTAGAGATGAACGTATTAGAAATTGAAATGGCTTTGAAGTGCTGCCTGCCCCACGCACACACATGGGCTGAGCACTGATTTCACCCCATAAAGCCTGTAGTGGCTTCCCCAAGTCCTTGCCGCTTACTGGCAATAGATGGCTTTCCAGACCGAATATCTCCCTGCGTGCTGCCTCTAATATCTTCAGAGTTCCCCAAACTTTCCTTCAATGCATAGAGAGATTTATTTTTATTTTATTTTATTTTATTTTATTTTATTTTATTGATATGGAAAATGATTTCCAACTTTATTTATATTCTGTTTATAATCTCAAACAGCAATTTTTAAAGAGTCAACACATAGTGAAGTAGCTACTATGCCCTCTCCTCCCCATAACCTTACACGAATATTTTCTGCTGAGAATGCATGGAGACTGGGTGGAGGCTATGTCATTGCAGTTAGAATCTGATTATGTTCTCTCTTTTCTCTTTAG
Seq C2 exon
AACAAGACCAAAAGTTCAATATAATGGCTATGCTGGCCATGAAAACAGTAATGGACAAGCTTCATTTGAAAACCCCATGTATGATACAAACTTAAAACCCACAGAGGCCAAGGCTGTGAGGTTTGACACGACTCTGAACACAGTGTGTACAGTGGTATAGCCCTCAGTGCCCCCTAGGACCGATTCATAGCCATACCTCTGATGGACAAGCAGTAAAATCCTTTGGTGCCATATACCACCCCCCTTCTACTCTTGCCTTGCTGCAGCAACCTTGGCCATCGTCTGCTGGCATAACGCAGTGGGAATTTCTTCTCAACCATGACCGAGTCTTCTGAGGATCAAATTGCAAATACATCTTCATCTGGAAAGTGGATTATAAAAGCCTGGCTGCTGCCTCCACCAGACATCAAGACACCGACAACGGCGAGGGCAAGGAAGACTGTAGTCTTACAGACAGGTGGTACTTAATGCCTCTGACTTTTGTGTCTCTGTGTGGCCAGGATGCCTTTGGATGTAGTCTTCTGAGCATATGGATACATCCTTCAGGTGCGGCGACAAAATGGTAGCAACTTGATATGTGTTTTGTGTTTTTCTTTTCTTTTTAACCCTATTCCCTGGACACGAATTCTTTACAAAAGAAAAACCTTCCTGGAGAAGACGTCTTCTGGAAAATGCACACACGTACACTCGCTTCACTCCACCCTGCCTGAGACATGAGCTCTGTGGATCTTCAGGCTCCATTGGGCATCCATCAACTACTAGGGATGTTTGCAGATCCCACAGTCAGAGCTGTTCCATCCAGGATTCTTGATGCTCAACATTTTGCACTAGTGTGTTAAGAACAACTAAGTCTGATTTCTAAACAATTTCCACAGGGTTTGTATTCATTATACATTGTACATAAGCATTTTCTCATATTGTATTCTCAAGCAACAGATGCCACCATCAATTAAGTTGGAATGTAAAGGGAAGTATCCCAGATACAGCACAGATTTTGAAAATAAGACAGTATGCTGAAGAAGTTATATTATCACTTCTGTTGGCCACACTTATGTGTCAAATCCATTGCCCACTTCTGGTGGTAGAAATGAAACCACATAGTCCCCTTGACTTCCCCCCTTCATGTGTATACAACTATTGTCTATACATTACTAATCAATAACAGGGGGCTCCAGCAATGTCCATTTTCCATGTACAGTGTGAATAGTAATTTATTTTAGGTAGCTCATGAACTCAGTTCACAGTGTAGTCTTCCCTTCTGAATTGTTTCCTTTCTCTGTTCTGTAACATCACCCTCCCAGAATGCATTGAGAGTCTTATCTCACAGCCACACCCAAGCTCAGAGGAATCAAAAGGGAAATCAAAGTTCAAATCAGAATCGGAAGGGCAGGCGCCACTCGCACACCCTCATGATGATCTGTTTTATAGATTATTTGCCTTCTTGCAAAAAAAAATCATTAGAGTGATTTTTGAAACGTTAAAATTCCTTACTGATAGACTATCTATTATGATATATATAAGATAGGTGGTATGGCCAACAGGGATAAAATAAACAGCCTGAAGACAAGGCAGGGCCAGAGAAATGTCTGTAAGAAATTCAAAGAGAAGATCATGTTTATTTTTATTTATATTTGTTTGATAAAAGTATTTTTGGAAATATAATGCTTATTTTATTATTTGACGTTTCATGCACAGTCCATGTGGTAAAAATCCCCCCGTTTGCACATCCCAGATTTGCACTGATACATGGGTCAGGATGCCATGCTGACGTTCTGTTTGCTGGTGACTACATTCATGCCTAGCTTTAAGACAGGTGGATCTGTCTATCTACATGATGTTTAAATGCAGGACTTCCCAGAGGACAATGGATAAAGAAATATTGGCTTACAGCTTTGGAAGTTCAGCATTCTGAGCATTCCAGAGGCCCCGCTGGGCTTCCTCCTTCCAGCCCTCTCTTCTTGCAAGGGCTGTCTGTTGTGTCAGGACTCCTGACTTCTGTCAACACTCTATCCACTGGGATTCATATTTCAGGACTCCATGTCCTAGGAAGGAGTTTTGATATAGGTTCCTTCAGCCAAGCCAACACACATCCATGGGATTCCTCTGGGTCCACAGAGGTTCTTCATTGGCTCCCTGGGAAATTCAGATGATGTCAACAAGAGTGTGCTTCTAACCACACATAGAGCCAAAACAAAACAGAGAGCGTCAGAGGGTCCACAGACCAGAGTGCGTAAGGGAGAACAGGGTTACTATATATATTAGATGTATATAAAAACACACACACAAACATATATATATTTATATATATATTGTACATATCTAAGTTTGAGTCACTCAGACTAGGTGCAAAATGCTGACTTTGGAGTCTAAACTAACGTCTCTGTCCCCACATCCCTGGCCTCTTTGCTGGCCAGTTACATTAAGAAGACTTGACTCAGACAGGGCATACATACATGCAAGGAGCCACATCGTTAGACCAGTGTCGTTTTCCTTTGTGTGCAAACTGACTTACAGCTACCAGACTGCATCGTGGTATTCAAAACCAACATACAATATTGAGCAGCACTCAGTTGAGAGCCTAGCTCAATTCTTCCTAGGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTGTTTCACCAGGTCTCAGAGGCATTGAAGACCTAGCAGGACAGTCAGGAACACCTTCCTCAGTGAGGTCTCGACTCTTCCCTGAAGCGCCCAGAGCACAGTGAGGAGACACGCTATGAGTGACAGATTTTGTGCTTTGAAGCTGTTCAACTGTCGCTTGTCTTTGCCCATCTTGCCTTCAGGCTAGCTGCAATAATTTTTTTCTTCTGTAAAATATTTTGTAAACAATAACAACAACAACAAAAGCTATTATAAAAAAAAAAGGGAGAAAAGAAAGCTGGCATTATGATCAGGAAAACCATCCATTCTCGCTGCCCCACCCTCCCGTCCCCACCACACGCTGCTGTCACAACGTAGGTGCGGAAGACCTTTTTGTACAGAGATATATTTTTTATGAAGAATTTGTAAAATTATTAAATATGCTGTAATTTTTTGATTAATGTAGGTAAATTGTTAAAAAAAATAAATGTTTTTACAATACAAAACTGTAATTTTCCCGATAATGTAACATTACCCTCTCTAGCTGATTTTCGGTTCCAATCCTATTCGACATGTATTAATATTAAGGCGGCCTGTTAAAATGAACAGTATCTTTTTGTCAAAAAAAATTATAAAGAGAGTGTAACATAACCTGTGTAATGCCACCTATCTTTAAAGCAAATCAGAGTTCTAATTAAATATTTAATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060924-Csmd1:NM_053171:69
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.311 A=NA C2=0.340
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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: