MmuINT0053335 @ mm10
Intron Retention
Gene
ENSMUSG00000059898 | Dsc3
Description
desmocollin 3 [Source:MGI Symbol;Acc:MGI:1194993]
Coordinates
chr18:19960930-19965882:-
Coord C1 exon
chr18:19965628-19965882
Coord A exon
chr18:19963570-19965627
Coord C2 exon
chr18:19960930-19963569
Length
2058 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CTCTTTTTTGGACTTTACAGAAA
3' ss Score
7.99
Exon sequences
Seq C1 exon
TGCTCTGCCAATGGATTCACCACCCACACTGCCAACAACTCCAGCCAAGGCTTCTGTGGTACAATGGGGTCAGGAATGAGGAATGGTGGGCAGGAGACCATCGAGATGATGAAAGGACACCAGACCTTGGACTCCTGCCGTGTGGCCGGGCATCACCATACCCTGGACTCCGGCAGGGGAGGACACATGGATACTGACAACTGCAGATACACATACTCAGAGTGGCACAGTTTCACTCAACCCCGACTTGGTGAA
Seq A exon
GTGAGTTTCCTTAGATGTTTTACTCTGAAGTAAAGAACAATCAGACACTGATATTAATGTACATTTCCAGAAACTGCTTTGCCACAGTGTTTATGAGTTTCCTCTTGTTAGTCACTTAAAAATGCTTTGGTTTTGTTATAGTCTTTAATTTTTAAATATTTTGATTCCTCTGTCACATTCATTCAGTTTCTAGACCCTTATAAGATCCAGGGACGCCAGGCGTAGTGGTGCATGCCTTCTAATATCTGCCCCTGAATGGTGTATCTTTTAGGTGTATCTCTATCTTATAAACTCCTTGGATAAGAAAAGAATGTGAAGAAAAATTCTAGTTCCTCACAAATAGACCTTTTCCAAATTAAATTTGTATTTTGCTATGAAAACATAAACTTCTAAATGCAGTTTTATGTTAAAGACTCCACACTTTACTGAGGTGCAGCTTTAGCTTAGAAAGCTGCACAATTAAGTTAAGCCAGACATTATTTACTTAGTTTACTTTTCTTATTTACTCTAAGTGCATCACTTACGGTGAATCGAGGAATCACCCGCGTAGACAATGTACAGGGAAATGACCCAGTTCATGGGGACATTTAAAATTTATTCTTAGTAATTTTGAAATATACAGCACACCACTATATGGATTGTTTTCAATACATAAAGCATACTACCAGATATAAAGGGCCTTATCTAGAAAGAGGCAATGATGAGGAAGAAAGGGTTCAATGAGTGGGTCTCAGTCTAAATCAGCAGTGTTAGGATGCTTTTAAAAATACAAATGCTTTTGTTTCATTCTAGGAGAGTCTAATTCCACTGCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATACAAAGTCTCACATGTGATTTGTATGTCAGGGAGGGTAGGGTAGGGGTCCTGTTTAAACATTCTTCTCAATGATTCATGCCTGAATCAGAGGGAACTTATGTGCTCTTAGCAAATATTGTACCAGACATGGTTAATTCTGTGATGGACAGAATATGGGTAATATTCTAGAAGAGGGTTCTTGGTCACTGCCTATATTATTATTATTTTTGTCTTACATTGTCACATTAAAGTTTTTACATGTTTTATATTTAAAGATGGCATTCATGTGAGATTATAAGAATTGTCAAAGCTCCAGACACTCATTTAGGAACGCCCTTCAGTGTTATAACTGGGAGGAGAAGCTAGCAAGGTCATGGATAAAACAGTTGGTAGCAGCCAGCCAGGAGCTGAGGATAAGGGAAAGGCTGTGCAGGTCAGCATAGGGAACCTTGAAGATTGGCAGACGTGCCAGTGAAACATAGTACTGAGGGTAAGGGAAAGAGGGTAGCAGGACATTGTACTGAGGGTAAGGCAAAGGCGGTCAAAGGCTTGGCTGCCTCAGAGCTCAAGTGTAGCATCTGCAGTGTGAGTTAAATGGATGATATTAATTTCATTGATTTTTCTGGGGATATATCTCTGGCTTTTGGATATGTTGGAATGCAGAATTTTTTTTTATGTTCCTCATCACTGCACAAGATAGAGGTTTAGTTCATGGTCATTGTATCCTTACGAGTGATGGGCACGAGTAGTATACTTCCATCCATTGCTCTTTCTATAATTAGTTTCCTGAAATAACAAAGTGATATTGGAGGAGAGGTTGACTTAAAAGTAACACAAGTTAGTAAACTAAAGTTATTTTAAACCAGAACCATTTGGTATTCACCTACAGATTCTAACCATTTGATATATTGTCTCCATCATGTGAACTGACCTCAATATAAGATGTAACATTTGGGGATAAATATTTAATTATGACTTAAGTGTACTTAGATATAACATTTGTAGACCTACTTTTATTTTGATGAATTATTAAAAATGACAACTATACTGATTTATGATATGGCTGTAATATAGACCAATCATGTGCATTTTTTGTGTGTAGGACTCCATTAGAGGACACACTGGTTAAAAATTAAACATAAAAGGTAAATAAAATAAATTTTCTGTTCATATGTTGAAGTTGTTTTAAAAAAATAATACAATCCTCTTTTTTGGACTTTACAG
Seq C2 exon
AAATTGCATGTGTGTAATCAGAATGAAGACCACATCCCATCCCAAGACTATGTCCTCACCTATAACTATGAAGGCAGAGGGTCTCCGGCCGGCTCTGTAGGTTGCTGCAGTGAAAAGCAGGAAGAAGAGGGACTTGACTTTTTAAACAACTTGGAACCCAAATTTCTTACATTGGCAGAAACATGCACAAAGAGATAATGCCAGTGGGTTACAATTTGAGATAGCCTTATCAGACATTCCAGAAATTTGAAACAATGATACTGTAAAACAGACTCAGTACTTATACAAAATGGTCTTGAGTTATGCTGGCTTGACATGTGATATTCTGAGTGTAGTCTAGTGTAAAATTGACACATATTCGGAAGAAACCATTTGTGAAATTCTGATCTTTTCCAGGAGTTTTGTGCTGTGTGTAACTCTCCTGCAAGGTGAGGCAGGAACTGTGCTCCAGTTCCTGGTCTGTTATAGGGTCACGAGATCCTGGCTGTGTGCAGGGCATGTATCTTCAAGTACAGCTAAGGTATACCTACATTGTGTGGCTAAGAGCTTCTGCACATATTATTTTCTCCATTTTACAATCTCCCCCCTATCAATTTGCGTTGTTAATGCAGTTTGTTGCTGACCACTTTTCAAAGAGTACAAGTGTTAAAACAGAGGACCAGAAGCGCTCAAGCTGTAGTAGTAGAGTTAAGTAAGGTCCACAGAGAACTCACCCTGTCAGGAGGATATTTTCCAAACAAATGAAACTATTAGTCTGAAAACAGTTAAGTTGTACCACTATCACATCCTTCTAAGGATGGTTTAAGAAACAAACAAAACACCAAGGAAGGATGTTTTAGGACAGAACAAACTTATGATGCATTGCATTAAAACTTTTGCAGAGGTGAAGATCGAGGGCCTGACTCTTTATAATTTCTATCAAATACTTTATTGGACATTGGAAACAAACTTTTGTACGCTGGCCTAATGTGTGCCAATTTTCTGTTTCAGCACCTTCTGAAGCCAGTGTTTATTTGCAACCAAAGTATGCACTGGAATGACATTTAAAATACAAAGGAAACAACAAGGAAAATGACAATGATTGAAAATAAGGCTGGGGATGGCTTATCTTGTAAAAAGAAATCAGGATCTTAAAGGAGTAGACTTCCTTCTGCCAGGCTACAGTGGGCTGTGTGACACCTAAAAGTGTCAGCTTCTGCCTGCTTGAGTAATTTGTTTAAATTTAGAAACATATATTGTAGTTTTAGTGGGGAAGAAAGAGACAGCCACATGGAAGAGTAGATTCATTTTGCAGGATATATATACATTTGTGCATTCAAACATTAGCAGCCAATTACGAGATTCAGCCCTCTACACTGCTGGAGCCTACGGCTTCCTGGCCTGCAGTTCACAGAAAGGATGTGGTTTTCTTGGGACCTAGTGTTGACAGATGCTGAAATACATGCTCTACCGCTCTTTTCTTCTATGTCTTCTCTCCTTTTCTTTTTTTTTTCCTTTCTTTTATTCTATTCTGGGGTATTGGATTACCTCTGCGTATTGCCTGGCCTCAAAATCTTAGTCCTCCTGTTGCAGTCTCTGGATATTAGAATTATAGGCAGATACTACCATTCTTGTTATTGAAGTAGAGCCAATTGGTCTTGTCCTTTAAAGTTGGAGCCTTCATGGTGCTGGGAGATAGTGGGAAAAATGTTGTTACCTTCATGTGGACTCAGAATCATAGCTTTGTTTCCAGAACCCACTCAGACTTTATGTGAAAGTAGCTCTGGCAGCCGTCCAGAGAGTCAGCCCTTCTTTTTCCTGTCTGCCAAGGCTGCTTGAAAGCCCTGCAGCAGATTCACTGAGCTGGCAAATCTTCCAGAAACTCTATAATCCTTCAGAGTGACTTTATTTTTATTTTTATCAGTTTGCTTTGTTAGAGGGGATTTATCACTTACAGAAGAACCAGGAATTTTGGATCTATGCAGGAAAGACCTTTTTCAGACCTCTTCTCATCTGGAATATGAAATCAGGAAAGTGGGCTGCAATGGGGGATGTAACTCAGCCTGGCATGGACAAAATAAAGGAATTGAGTCCAAGCTTTGCGTAAAACAGGCATGATGACAACATGCCTGTAGCCACAGCACTTAGGAGGCAGGGAGCAGGAAAATCGAGGGAGTTCAACATTCTCCATAATTATGTAGAAGCTTGAGGCCAGTTTAGGTTACATGTGGTGAGTCTTTGGATGGGCCAGAATTGTTATACTGGTCAAACTACATGTGCATCTAAGATTTTGATTAGATTTTAATTTTTTTCCTGTTTTTATTTTACCCCAAGGGTTACTTTCATGATAGACTTTTGAAACAATCAATTTGTTTTTTGTTCACAGCATCATATAATATTATACTCTTCTCACATGTATAGGTGAAAATTGTGCTATTTTAGTGTGTAAGAAAAATCATCTCTCCTTTTGTAACACTTTCCTTCCCTCCCCTGGGTTTTTATGTAAATGTACAGTCCATTTTTTTCTTACATTTATAAGGAAGAAGTTAACTGTCTAAAGAACAATTGGAGTTTATTTTTCAATGTTATAAACAACTTTAATTTGACAATTAAATTGCTTTTGAACCTTGTCAAATAAAAACAAACAAGCGTTGAATGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059898:ENSMUST00000115848:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.241 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=PU(46.8=68.2)
A:
NA
C2:
PF0104912=Cadherin_C=PD(51.6=97.0)
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