MmuINT0085090 @ mm10
Intron Retention
Gene
ENSMUSG00000001552 | Jup
Description
junction plakoglobin [Source:MGI Symbol;Acc:MGI:96650]
Coordinates
chr11:100370619-100372461:-
Coord C1 exon
chr11:100372296-100372461
Coord A exon
chr11:100371450-100372295
Coord C2 exon
chr11:100370619-100371449
Length
846 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGG
5' ss Score
5.2
3' ss Seq
GGTGTCCTCATGTCCCACAGGCG
3' ss Score
8.62
Exon sequences
Seq C1 exon
ACATGGATGCCACCTACCGCCCCATGTACTCCAGCGATGTGCCTCTGGACCCTCTGGACATGCACATGGACCTGGATGGAGACTACCCCATGGACACCTACAGTGACGGCCTGAGGCCTCCCTACCCCACTGCAGACCACATGCTGGCCTAGCCAGCTCCACCTCA
Seq A exon
GTAAGGCCCCTTCCCCACTCCCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTGCTTGCTCGCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCCCAGCCTTGCCCTCAGCCTGTTGCTATGGTTACACTGCCACTTCCTTTTCTTTCTGGTCTGGTGGGGACCTCTCCATCCTGGGCTATAAACCCTGGCTCATTTTGGGGGACGGGGAAGGAGTGTGGCAATCCTGTGCTTTTTGATCTGTTGTGCTTTGGCCTGCCTTTCTGATGATGATGATGATGAAGAAGAAGAAGAAGAAGAATTATTATGGACTAGGTTTTACTCCGTGTTTTAGGCTGGCCTGAAATTCATTATGTAGCCCAGGCTGGCCTCACGTCTGTGGCTTTTCCCCAGCCTTAGTGAAATCATCATCCCAGTGTCATTTTTTTTTTTTTTAACACTGGGGACAGAACCTATTGCACCTATGAGTGCTAGGGCAAGGCTACCATTGAACCACATCCCTAGCCCTGGTTTTGCCGTCTGTTACATTGAGATAGTCTCGCTAAACTGTCCAGGCTAGCCTTTAACAGCCTGGAGTGCAGACATGCCTTGAATTTAGGATCTTCCCATATTAGCCCCCTATAGACCTGCACAGCTGGAGTTGGGGTGGGGGTCCTCCATTATATTTGCCCCTTGCTTGGCTAGGCCATGCTCCTCCAGCTACTTCTAAGCAAATGAGGAAAAAGGCCATTTTTTTCTGGGGTCGTAGACAGATGTCACAATAGCACCCCTGAACTTCTGGGGGAGGCAGGCCTGTCAAGCACCTGACCTCGGTGTCCTCATGTCCCACAG
Seq C2 exon
GCGCTGTTTCTCACCTGGAAAGCTCTCAAGAGCAGACTGTGGGAGGAGACAGAAAAGTACCTGAGCCCCGGGGGCCGGCCTGGACTTCCTGCTGAACACGCGTGCTCCCGTGCTCCAGAGAGTTCCTCCATAGGGATTTTGGGATGGTGTCTGTTCCTGCTTTTCTGTCCTGGGCTGGGGATCCAGGCTCAGCACTTTCTCCCCGTCCCCACTATGGCTATGGCCACTAAAGCTTTAGACTCAGCCTGTGTCCCTGCACAGCAATTCTCTCTGCTGACTCCAGCTGCCTGGACCCCCACCCCCACCCCCACCCAGGCCTTCCTTTGTTTTTTTTCGGGGGCCAGTTTTCTCACTTGACCTCCTGGGATATCCAAGACACAGGTTCAAGGCCCCAACCCCTGACACCCAAAGCTTCTTTTGAAAAGTTCAGGGACCTTCTTGGGGGTCGGTGGGGAGAGCGGAGACATTAAGTGCCCCTGCCAGGACCTGCCCTTCCCTTCAGGATGCTAAGTTTTTGCTTTGACCCTCCCAAGGGGGGAGCTCTTGGTGACGCTCCCTCCCTCTCACATCACTCCACACTGGCCCATCTGCTCTGCAGAAGCGTTCTGGCTCACCCCTCTGGTGTGTGGTGAGGGGCTTTCTTCTCCCCCTCCTGTTTGACTCCCACCACCTCCTGCACATGGGTTTGGGGGCGGGGGTGGGGGACTGAAAGGGAAGTCCCCTCAGAGAGTCTTATTATCAACACTTTATTTTTTGGTTATTGGCTTTTCTTTTCTTTTTTTGTTTTTGTATAGACCAAAGCAAAGAAAATAAAATAACACAGAGATCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001552:ENSMUST00000001592:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTGGATGGAGACTACCCC
R:
CAGGGACACAGGCTGAGTCTA
Band lengths:
354-1200
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