MmuINT0169556 @ mm9
Intron Retention
Gene
ENSMUSG00000044308 | Ubr3
Description
ubiquitin protein ligase E3 component n-recognin 3 [Source:MGI Symbol;Acc:MGI:1861100]
Coordinates
chr2:69772446-69774079:+
Coord C1 exon
chr2:69772446-69772512
Coord A exon
chr2:69772513-69773948
Coord C2 exon
chr2:69773949-69774079
Length
1436 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
ATTTTCTCTTTCTAATACAGATC
3' ss Score
10.12
Exon sequences
Seq C1 exon
GAGGACCAGGATGGGAGTCAAGGCTTGGGCAAGAGAAAGAGGGTGAAGCTAAGCAGTGGCACCAAAG
Seq A exon
GTATTTATGGTCCCCCCCCCTCCCCGCCTTTTTTTTCCGAGATAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGCATTAAAGGCGTGTGCCACCACTGCCTTTTTTTGAGATAGGGTTTAACTACATCATCTAGGCTAGCCTTGAAACTCACTGTGTGCCTACATTGACTGAACCCACAGTCTTCTTGGCTCAGTCTCCTAAGTTTTTTACTTGGATGACAGCTGTGTGCCACTATACCTGGTTATAGTCTGTTTTTTCTTTAAAAATATTTAAAAACAAACAAAACCTTTAATATTTTGAAATCCTGGCTACATACTGAGACCCAAGACCCTGTCTTAGAAAAAATTCTCAGAAGTAAATAAAGAAATAAATTTAAAATGTAAATTGCTTGGGCTTTATGTTTTCAGTAGCGTTTAGTTTTAACTTGAGATTTTTTTACATTTGTACCATGATATTCTTTTAAGGAAATGATAGTTCTAGAATTCCTTATCTGAAACACTTGGGACAAGTTTCTGATTTTAGTGTTTAAAATTTTTAATTATTTTACCTGCGTGGGCGTTTGTGGTATGGTTATGTCAGTACACTGTGTGTGCTCAGTACCTGCCGGGGCTAGAGAAGGGCATAGGCCCCCTGGAATTGGAGTTATGGATGGTTGTGAGTCACCATTGTGGGTGTGGGGAATTGAGCCTGGGTCTCTCGAAGCAGAGTTAGTGTTCTTAACTGCTGAGCTCTCTCTAACCCCAAATTTTGAGATGTTTGTTTTGTCATTTGAAACAGGGTTGTACTGTACAGTCTTGGTTGTCCTTGAGGTCTATGTTCTCAAAGATTTTGTAGCATTTTCCTCTTTGGATTAGTGATACCAAATTTAAAATTTGAAACTCAATAGAAATTTTAGGTACGTGGCTATATTTAAGAACACATAAAACAGGGCTGGAGAGATGGCTCAGCAGTTAAGAGCACTGACTGCTTGCTCTTCCAGAGGTCCTGAGTTCAAACCCCAGCAACCACATAGTGGCTCACAAGCATCTGTAATGAGATCTGATGCCCTCTTTTGGTGTGTCTGAAGACAGCTACAGTGCACTCACATATAATCAATCAATCAATCAATCAATCAATCACTCAATCCATCCAAAAAAAAAATCCAAGTATTACTTTTTGAGTAAATGCTTGTTATTAACATATTTAAGGTATTTAATGTTTTGGTGTTTGTGTACTGTGGAAGTTGGTGACTTTTTTTATAGTAGTGAAAGAAGATCATTGAATTGTAGGTACTTTCAGATGAGTTTGATGGACTGTTGGATTGTATGGCAAGGTTTAAATGACATGAGCAACTTAATTAGTGATAAATTTTCTCTTTCTAATACAG
Seq C2 exon
ATCAATCCATAATGGATGTTTTGAAACATAAAAGTTTTTTAGAAGAACTATTATTTTGGACAATAAAGTATGAGTTCCCACAGAAGATGGTAACTTTCTTGCTCAATATGCTCCCAGATCAAGAGTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044308-Ubr3:NM_001081548:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.657 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion 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:
GAGGACCAGGATGGGAGTCAA
R:
CTTATACTCTTGATCTGGGAGCA
Band lengths:
198-1634
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: