MmuINT0053299 @ mm10
Intron Retention
Gene
ENSMUSG00000044322 | Dsc1
Description
desmocollin 1 [Source:MGI Symbol;Acc:MGI:109173]
Coordinates
chr18:20089538-20094659:-
Coord C1 exon
chr18:20094517-20094659
Coord A exon
chr18:20089751-20094516
Coord C2 exon
chr18:20089538-20089750
Length
4766 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCTATTTTTATCTATCCTAGCTG
3' ss Score
7.06
Exon sequences
Seq C1 exon
GTATGAGATGGTAGGAGATGAAGATAATTGGTTTGAGATTAACAAAATCACCGGAGACTTGAGAACTGTGAAAGTACTGGACAGAGAGTCGAAGTTTGTGAAAAACAACCAGTACAATATTTCAGTAGTGGCGACAGATACAG
Seq A exon
GTGAGTGCCATTTTCTAGAAGAAAAACATGAATATAGAATGTGTCTAGGTCAAATCTTAGTTCAGACACTGCTTCCTCTAAGGTTCTAATTAATAATCTACAACAATGTGTTCAGTATGATAGCTCATTTCAGTCCGATCATCCATTTAGTGCCCGGTACACCCCTCGGGCAGAGCCACAGGAGAGTGAATGATCAAAGTCTAATTTTGAGTACTGGTTTGTTTATTTCTGCTGAGGAATATAATTAAATCTCATAATGCCTTGTCTAGGGACTTTTTTTTTTTTAATTGTCCTAGTGAGGGTTACTATTGCTATGATGAAACACTATGACAAAAGCAAGTTGGAGAGGAAAGGACTTATGTTATTCACAGCTCCTTTTAACAGTTCATTGTCAAAAGCAGTGAGGGAGGAACTCACACAGGGCAGGAACCTGGAGGTGAGAACAAATGCAGAGGCCATGGAGGAGTGCTTGCTTATCATGCCTTGCTTAGCCTGCTTTCTTATAAACTCAGGACCACCAGCCCAGGGATGGCTCCACTCACCATAAACTGGTCCCTCCTGCATCAATCACTAATTAAGAAAATGCTCTACAGGCTTGTCTGTAGCCTAGCTTTATGGAGTCATTTTCCGAACTGGAGTTTCCTCTTCTCAGATGACTCTAGCTTGTGTCAAGTTGACATAAAACTCGCCAGGACACTTACCTTACAGGTCTTTTCATATATATGTTTTTGGTTTCCTGTTTTTATAGGATGTTCGTGTGTGCAAATGTGTGTGTCTCTGAGTCTATATATGTTTCTTGTGCTTTTACTTGGCTTCTTCTTTTCTGCTTATTTTGTCCTATTCTGTTTTGCTTGTATTATTATTGTTTTAGATGCCTGTTTGTTTTCTAAAGAGAGAAAGGTAAAGTATGGATTTAGGAGGGAGGGGAAGTGGGGAGGAGTTGGAAGGAGCTGGGGGAGAGGAAACAGTAATTGGAATTTATTATATGAAAAAAAATCTATTTTCAGTTAAAGAACAACCATGAACTAGTTCTACTCTATAGAGTGTTTCCTTCAAATACTGTCAACTGTCAAGTGATGATCCTGAAACTCTTGAAATAAACTCCTGCCTCCTGGAACCATATTAGATAGTTTAAATAAACATATGCATATTAATGTGCTACCAATGTTTGCTAGTGTACACATGTACTATTATGCAAAACATTATATAAATCTATGCCATAGAGATAAATGAAATAAAAGTTAAAATGAGTAATAAAGTATTACCCATGTAAGACAAATCCTCATAGAGATTTAAAAAATTATCATCTTGGGGTTTTCAGACAGAATTAAATTTTTTGCCTGTTTGATTAACTCAACAAGATTTCTGGTGTTTTTAGATGTACATGCTAAGCATGTAAAATGTATTGACAGACAGTAACATAGGCTATTTCTACACATTTCTTGAATTTCCTCAAATTAATAATATATAACAGTTCCCCAGATATTATTGGCTATCCAGCCTATTTTAGCTACAATGTTTTTTTTTTAAATATAAAAGTATGTGTTTGGGTATAGGTGTATGCATGTGAGTGCAGGTGACCCAAGAGGCCTTAGGAGCTGTGGGTGGTGTGAGCCACCTGTTACGAATGCTGGGACTTGAACTCGGATCCTCTGGAAAAGAAGTACCATGCTCTTCACCACTGAGCCATCTCTCTGGCCCTTTTGTTGGTTTTAAAGCAAGCAGTGTAGCTACTGAGAGACCAAAGGTTAACTGATGAAGACTGCTTCCTGTTTATGCAGACAGGACAAGCTGACTCATGACCACTCTGCCCATTAGAGCTTTTCTCACCTCTCAGTCCCGCTGCCTTTGGGATGGAAGTACCAGGTTACACATCCTCTTCATGACCATGGAAATGAGAAGTCATGAGATGAGGTTTGGTCTTTCTAATAACGAAAGCTTTACTGCTTTATATTCTGAGCATTAAAGAACTCTCCTATCAGCTAAGCTAATCCAGCTTTCAAAAGCTGAGCGCCCTTTTACTGTGAATGTCATTACCAAGTAAACTACCTGCATAGTACCTTTCTCTTTGATCCACACCTCAAATATACTCTGTGTTTGTTTTATAGAGTTATCTTACTATAAGTTCCAAAACTCTGCAGAATAACAGGTGGGCGGATATTAGCTGAGAAACATACTGATTTAATATACTTTACAGCTCTGGATAATGTGGTTTATTTTTTAAGTTTGCTATTCCTATAAGTAAAAATGAAATCTAAACAGCTTATACATATAATTATGCTGTGAAACAGGACTCTCTATCTACTTACATTTAGATGTTAAAATTCTAAGTGCAGGATCATGGAAACTAGGAGGCATGAGATGAGGAGTTGGTCCTTCTAATAATGAAAGCGTTACTGCTTACATTCTAAGAAGAGAGTCTATGGTATAACATTTTATTCCAGTAGAGAATGTTTAGATGTCTCTACACACTGAGAGAGTTTGGAGGCTTTTAGGGTAAAGCACAAAGAGGGGTGAAGCCCTGGCACTAGATGAAAGGAAAATAAATTCTTATTTAGAGAGGATAAAATTACAGAGAGCAAAATATAAGAAAGAAACTTTGTTGCTTAGTACTGAAAGATACGGAGGGTAAGCATGGTAGGGTTAGTATAAAAGAGCAAAGCTTAGGCAAAGCACGCCCCAGAGTCATACATTACCTAGCCATGCCCTAGAGAAGATGAGGATTCAAAACACATTTATGAGAAAATTAATGGTAATCATGTATTCATACATTTAGATTAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGAACTTGTTTTGGTGCTCAAAGGTATTCCTAAATGATAATTTAGGAAGTCCTAATGGCCCCTTAGAATCTAGCTTATGTCCTTGTATTTCTCATGTGCATCATTCTTCTCTGTCAGGCTGATCTCCCTGCTATCTGTCTAGAGAACGCTGTTTTATGTATCTTACTCCTAGAACATGAGAGTAGCAGGGCTCCTCTAGCCCTACCCTGAAGCACATGTTCCTTAAATTATTCAAATGAATAGCCGTGACAGCTTCTGTGATTGTTCTCTGCTAGTCTTTGTTTGATTCATAATACTGCAATTTAAACATTATTATACACTGGAAATAAATATAATAATTATCACATATGCTGTACTGTTACTTTGAAAGTGTGCCTTCACTTGCTCTCATTCATATTTTTTTCTTCTAAGTTGGTTAACAGCTCAAATTCCCTCTACCCTCCACCCTACCACCTCTCCAGTAAACTGTCCCTTTATCAAGCATGAAGATGAAAATTTGGTACATATCTGTTTAAGGCATTTTAAATGTTATGTGTGTGTGTATGTGCGCGCACACCTATATGCATGGCCTTTAGAAAGGTAGAAAGCGGCATTGGATCCCCTGGAGCTAGAGTTACAGGCAGAACAAGGCTGATCTAAGGCTTTCGCAGAGACCCTGATTAAAGGACAGAGGGGACCTAGTTCTGTCTCCTTGCCCAGGGACAGATTTGGCAAGATCCAGTCTATGGCTGGGGCCAGGGTCTCAAAGGAGTTAAGGTTTCAGTTCTTGACAACTTGCTCCCCACCCCCACCCTCACCAGAGAGATCAGTCCCAAGACCTCTGTGGACAGCATTTCTGACACTTGAGGTATTCTACATTCACCATGTGCTTTATTAGCCTTCTGCTGAATTTGTCCCATTTCTTCCCTAACAACTGGATGTAAGATCCTTACTTCTTATTAGGCCTGCTTGGCGTAACACGTTGCTTGTGCAATAATTCCTGACCCCAGGTTTCCTATCTCCTCTAACCTTTCTTCTGATTTTCTCCTTTAGAAGCCTTTCATTGAAGAATAACCAGTTTGTCCATGTTACCCATTTATGACATGAATGTTAAGATCTAAATTGTGGTCCTGGGCAGGAGTAACATGACTCCTCCCCAGTAAGGCCCAGCTAACGTGTCATGGTTAGACTTGTTGTTCCTCTGTGGTTTGAGAAGCATGTAAACCTCCAGGTTCAGGCTGTGAAATTAGCTACTAAGGATTTGACAACTTTGATGTGTACTTGGTGCTTAGAACAACTGAGCTCAAACCTTATGAAAGACCTTCTTAGTTTTTAGCTTCTGAAAAAAAGTCTTAAAATTATTACTGAGTGGTTATCATATCAAAGTGGTAAGCATTTTCTTATTTGAACCCAAAAGTAACACACATGATGTTAGAAGCTAATGGGCATACCACAACTCAAGAAGAAATAGAAGAAATAATAAAGAGCTCTATTCATTCAGGTCTGACTTATAATATTGTGAGCTTCAGGATATGGAAAACAGTAATGACAGCTACTGACTTCAGAAGCTCTTTCTCGAAGGGCTATGGACTTAGATTTTAGTTGGTGCATATACTTCTTAGTTCTGTGGCTGGTACTCCCCACTCATTGACACTTATCAATCAACTGACAGGTAATTTAAAGTAAGCTGTTGAACTAGACAAATCTATGTAGCTGCCTCTTCATGATGTTCCATTTACTATAAATGGAAAATCAGGCTCTGGTGTCTTGGCAAATTTTCAGAGTTTATTTTCAACTCTGCTTTGACTAATAAACTTCCAAGTGACGTCGAGCATCTCCTGTTCTGTTTTTATCAGCATGTTTCAAACAGAGAATCATTAAATGACAAATATTGGTTAAATGTAGGCTTAAGTGAATCTCAATCTGCTATTAGAATAACCTATTTTTATCTATCCTAG
Seq C2 exon
CTGGCCGATCTTGCACAGGAACACTGGTAGTTCTTCTGGAAGATTTTAATGACCACCCACCACAGATTGACAAGGAAGTGACCATTTGTCAGCAGGAGAAGGATTTTGCTGTTTTGGAACCTATAGATTTAGATGGGCCAGATAATGGTCCACCTTTTCAGTTCCTTCTGGATAATTCTTCCAGCAAACTTTGGACTCTAGAATCACAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044322:ENSMUST00000038710:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.056
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(51.6=100)
A:
NA
C2:
PF0002812=Cadherin=PD(14.0=18.1),PF0002812=Cadherin=PU(54.0=65.3)
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:
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