MmuINT0169532 @ mm10
Intron Retention
Gene
ENSMUSG00000044308 | Ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:MGI Symbol;Acc:MGI:1861100]
Coordinates
chr2:69954276-69956106:+
Coord C1 exon
chr2:69954276-69954361
Coord A exon
chr2:69954362-69955964
Coord C2 exon
chr2:69955965-69956106
Length
1603 bp
Sequences
Splice sites
5' ss Seq
CTCATATCC
5' ss Score
-13.36
3' ss Seq
TTTCTTGACACATACATTATATC
3' ss Score
-6.34
Exon sequences
Seq C1 exon
GGATGTCTGACGATGACATTCTCAGGGCAGAGATGGTGGCCCAGCTGTGTATGAACGACAGGACACATAGCTCTTTGCTTGACCTC
Seq A exon
ATATCCTTTCAAAGTGTCATTTTGTGCTTGTGTTAATTACGTTTGTAGATTAAAAATATCTCAATTTAAAAGATATTTTTTTCAACTTGCAAATGTGTAGGATAAGTTGTTTGCTGAGGGATGTGTTCAGGGCAGGTTGTGTGCTTGGCCGTCTCTCACTGTCTCTCAGGAAGATTTTCTTAGACTTCAGGGTTGACCGTTCTGGACACATAGGACCTGCGCCTCTCATAGCAGCATTAGGGAGAGGAAGCTGGGCATTTTGTAAATGGGACCCCTGTCATTTTTCCTTATGTAGCGAGGCTGGAGTACATAGAGCTTAGAGTCTTTATAATTACCACTATTAGGGGTTTAAATATTCCCAAAATTTTTGTTAGACTCAGTCTTAAAGAATTTTCAAGTTTATGGATTATCCTCTACCTACTGGAGGTATGGTCCCTGAGATAGAGCTGAATATTCAGTAGTAGTTTTTTTTTTAAAAATTAAAAAAGTATTTATTTTACATGTATGGGTATTTGTATGCATGCATGTTATGTGCACCACATACATGCCTGGTCCTGGCAGAGGTTAGAAGAAGGCGTTGTAACCCCTGGAACTGGATTTGATGGTTATGAATCACTGTGTGGGTATTGGGAACCAAACTTAGGTCTTCTGCAAGAGCTGTCACTGCTTTTACCCACTGGACTATCTATCCAGCCCCGCCCCCTTAAATACATTAATTTTTTTTTTATGCAGACATTTTTGAGGTAGGATCTCGCTGTATAGCCCTGCTTGGTCTGGAACTTACAGTGTGGACCGGCCTTGAACTTGGCTTAATCCTCCTGCTTCTGCCTGCCAAATACTGCCATTATAGGCTGATCATAGTGGCAAGGTAATGAAACCTTAAAATCTTAGTGTTAGTGTATGGTGAAAATATCTAACAAAATTTAGTATGTCGGTATCATTTAGAAAATATTTGTTTTCTTAACGACTTGAAGATTTTGTAGCATCAGTTCAGTACTGCGTGGTAGCAAGCCCCAACCGCATCGCAGTGATACGGGTTAAACCCATCCTCAGCCTCCTTTGACTATTTCTTCAAACAGCTAGCAAAAACATTTTCTAAAATTTGATTTAGTTTAAGAATTACATGCCTTAATATGAACTAGGACAGAGTATTTGTGGCTTGGTGCTTTCCCTTTGTGTGAACCCACTTGTTTTTATTTGCTTTTAGAAATTTTGCTTTTAGAAAAGTAGTCTTTACTCCTACACATCTGTGCTGGGTTTTTGTATATTCTTTCTGGTTTTCTGAACAAGGGTACAGTATATTTATACAGTGATGAAAATGGACATAATGGAAATTGTTTTCCTTTCATTTAATGGAATTCGATCAATTTATTTTGGGGAAAGTATACTTAGGGCCACCTCATCATATAATTTATTTGGCTCATATATTTAAAACCACAATAAGGTTCATACTGAACTGTTATGTCACCCTCTTGTGGCCAACATTATACATTACAGCCAGTCATTTTCTATTTTGGTAAAATGAATTTGAACTGAGTAATTTGTAGACGTTGATGCTGGTGCTAGTCATTAATATTGTTTGTTTTCTTGACACATACATTAT
Seq C2 exon
ATCCCAGAAAATCCCAACCCCAAAAGTGGCATTATTCCTGGAAGTTATAGCTTTGAATCAGTTTTATCTGCTGTAGCGGACTTTAGGGCTCCCATTTTTGAACCTGGAGGCTCTATGCAACAAGGCATGTACACTCCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044308:ENSMUST00000055758:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTGACGATGACATTCTCAGGGC
R:
CTTTGGGAGTGTACATGCCTTGT
Band lengths:
222-1825
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