MmuINT0169551 @ mm9
Intron Retention
Gene
ENSMUSG00000044308 | Ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:MGI Symbol;Acc:MGI:1861100]
Coordinates
chr2:69856450-69858717:+
Coord C1 exon
chr2:69856450-69856629
Coord A exon
chr2:69856630-69858507
Coord C2 exon
chr2:69858508-69858717
Length
1878 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
ACTATTTTTGGATGTTTTAGGCC
3' ss Score
7.76
Exon sequences
Seq C1 exon
GAAGAAGAAGAATTTTCAGTCCTTGCCAGCTGCCTGGGACTTCTGCCAACTTTTTACCAAACAGATCACCCGTTCATCAGTGCCTCGTGTCTGGACTGGCCAGTTGCAGCGTTTGACATTATAACTCAGTGGTGTTTTGAGATAACATCATTTACGGAGAGACACGCAGAGCAAGGAAAG
Seq A exon
GTATGGAGAGAAGTGGGGGGCAATGTGCTTCTAGGTAGGGGACTAATGGAAGAAGTCAAATCTAGGTCGTTGGTGGCAGCAGGTTTTAAACTGATAAAGTTGAAATAATAGTTGAGTCAAGTCATAAGTAGTAAAAAAAGCAGAAATATGTCACTTAAAAAAGTATACTAGCTGTTACTTTTGGCTTAAGTCTGTAGATTTTAATTAAATCATTTAAACAACCATCATAGTGGTGTTGGAAAATAAAAAAAAGTTAAAGTTAATAAATAGTATTCTTAGTTGTAGAGTTGTCTCATGGTTAAAAGTATTTGATAATGAACACTAAAAGATTATGTCTGTAACATTTAAATGTGGGTTTGTATTGCCAGCTTGGTTGGTAAAGGGTTTATAGTGACCAGTGACTGAGAGTGGAGGTAGGCTGCAGGCCACTGCATTGCCATGGTTTCTGTTCCTGAGAACCGAAGTGATCTGGTGGCATCGTTATTTCACAGGGTCATTCTGTTGACCTTTTAGTAGAGTAAGACGATAAATTACCAGGTTGTTCAGAGGTGAAGAGACTCCAGACTACTTTTCTGATTGTAGAAGTCAGAAAGTAGCTACTGCAAGAGTCGTTTGAGAGGAATCCATAGCCTTGGTGACCAGATGCAGGTGACTTCTAATCTTAGATAAAATCATTGCATGTTCTAGTTCTCATGGAACATGTTCCTGCTGTGTCTCATTGAGGTTCTGTCTTGGCAGTCAAGACATGTCACCGTCTTGCTTGTGTTTCCATTGTTGTGATATCATGAATCTGCTACCTTGCTTCATTTGACACAAATATGTTTAAGTGTACTGCAGACTTTGAAGTGCCTGTAAGCATGCCTATCGCTGCTGCTTCTGTCCCTAGCAGCAGTACTGTCTTCTGTTGAATCTATGCTTTTTGAGGCTTGGCCTCTTCCAGCAAAAGTGTCTGCTAATCAATTTTCCTTACAGCCTTACCTCCTCCAACTCTGCTGCTGCGTCACCCTCTTTAAGCATTGCTGTGTTTATATGGACAAGAGTCAACCCAGGGCCTCCCGTGTGGTGAGCTCTGAATCCCAAGTGCTGCTGAGCTTAGCGGCTGTTTATCATCTGTTGCTTTAATGAAGCCTTCACAGAACAGAAATTCTTATTTTTCTTTGAATTTCCCAATTCCTAGAAAGTGTTTTACAGAAATTCGTTGGCTAATGAATATATGGAATTATAATGTGAATGGAGTAATATCTAGAAAAAAAATCACCAGTACTGTTTTATTCCTACAAGTAGTAAATACAGCGTGCTCTGCAGGAATTATAGCTGGCTTTGAGTTTTCCATACGAAACAGGGAGTTTATTCAAAGAGTTTTAGGCCCTTAGCACTTACAGATACAAATAATCTTGACAGCCTAAAGTATATGAACATAACATATTCAGGAGGGAGAATTCATATAAAGCATTAAAATAGGAACAATACTGTAGCTCTGACTTATGCTAAAGACAAGCTGAAGAATCACTTGTATATGACAGGTCAAGACCCGGTGTCAAGAATGCTTAATTAACTAGTTAATATCTTTCCATGTTTAGAGATATATTTTCATGCATGTTCAGAGGTACTATTTTTTTCCTCTCTTAAAATAATAAACATATTTTAGGATGCTTATTCTAAAGTTTTACATCTGCTATAATTGAAATCTGTATGGAAATAAAGAATAATTACTAAAGGGCTGTTTGGTTTTTTGTAAAATGGAAAAAATATTTAAATAAATAAGTCACATTCTTGAAAGTAGATTTTTCATCCTAAAATAAAATCATTTTAAAATTTGAACATATAACTTTAGTATCCTGTGTACATAGGGCTGATGACTATTTTTGGATGTTTTAG
Seq C2 exon
GCCTTGCTTATCCAAGAATCAAGATGGAAGTTACCACACCTGTTACAGTTGCCTGAGAATTACAACACTATTTTTCAGTACTATCATAGAAAAACCTGCAGTGTCTGCACCAAGGTTCCTAAAGACCCAGCTGTTTGCCTCGTCTGCGGCACTTTCGTATGCCTGAAAGGCCTGTGCTGCAAGCAGCAAAGTTACTGTGAATGTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044308-Ubr3:NM_001081548:36
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTCAGTCCTTGCCAGCTGC
R:
CTTGCAGCACAGGCCTTTCAG
Band lengths:
351-2229
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: