MmuINT0168899 @ mm9
Intron Retention
Gene
ENSMUSG00000036352 | Ubac1
Description
ubiquitin associated domain containing 1 [Source:MGI Symbol;Acc:MGI:1920995]
Coordinates
chr2:25863239-25864489:-
Coord C1 exon
chr2:25864381-25864489
Coord A exon
chr2:25863474-25864380
Coord C2 exon
chr2:25863239-25863473
Length
907 bp
Sequences
Splice sites
5' ss Seq
CCAGTATGC
5' ss Score
2.6
3' ss Seq
AATCTTTTGTCCCCTTCCAGCAT
3' ss Score
9.1
Exon sequences
Seq C1 exon
CTATGCTGGATGAAGATGAGGATGAGCGAGTGGATGAGACTGCCTTGCGGCAGCTCACAGAGATGGGCTTTCCTGAGAGCAGAGCCTCAAAGGCCCTTCGGCTGAACCA
Seq A exon
GTATGCTTGCTTTCTTCTTGCCCTGGGCTTCCCTGTGATTCTCCTTCCAATCTCTGGAGTCATACTTTTTTTTTTAATTTTTATTTATCTGTGTATATGTACATGTGTGTATGGGTGCCCATAGAAGCCAGAGAGGAAGTTGGATCTTCTGGAGCTAGAATTACAGACTGCTGTGAACTGCCTGACACAGGTGCTAGGAACCAAACTCAGGAGCTCTTCATCTTAATCTAGGAGCCAGCTCCCCGATCCCATTGAGTCATTTCTAATTGGGTGTTCTAGTAGAGGCACCTTATTGCTGTGCTTCAGAAGTGCTTTCATATATGATCTTTTGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGAGGGTCTCTGTTACCTATGCTGGACTTGAACTCCTGGACTTATGTAGTCCTCCTGCCTTAGGCTCCTGAGTAGCTAGGATTGAAGGTGTGAACCATGATACCTGGCTGTTTGGAGGGTTAAAAATCACTCTGTAAATGTATCCTGCACTCTCAAGTTAGGAGAGCTCTGAGCCAGACCTGCTCCTGGCTGGACAGGGATTCTTAATAGTCTTCTTGCACTTCTGGTTTTAATACTCACTCGGATCCCATATGAAGTCTATAGAGCAGAGCTGGTCAACAACAGTGTTCTTTGTGCTGTGCACCTAGGACCTGGACTCCTTTGTCTCTTGTGTTTTGGGCATGTGTCTGTGCTTGTTTTATTGGGTCTTGGGGGTTTGAGGTAAGAGCTTTGTGGAGGTTTCCATCCCAAGAGATCATATGTCACCATTGCTGCTGCTGGTCTTGCTATCTCTGTTGAAACATATTGGAGTACATAGGATAGGAAAGTTTTCAGTAACCATCCTGGAGAGTTAAGAATCTTTTGTCCCCTTCCAG
Seq C2 exon
CATGTCAGTGCCTCAGGCCATGGAGTGGCTAATTGAACACTCAGAAGATCCAGCTATTGACACACCTCTTCCAGGCCATGCTGCTCAAGCAGGGGCCAGTGCTGCAGCCACTACCTCCTCCACCTCCTCTGAAGCTGCTGTGGGAACTAGTGTTGAAGATGAGGAGTCCCGGGATGAGCTCACAGAAATCTTCAAGAAGATACGCAGGAAAAAGGAATTTCGAGCAGATGCTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036352-Ubac1:NM_133835:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.716 A=NA C2=0.644
Domain overlap (PFAM):
C1:
PF0062726=UBA=PU(70.3=70.3)
A:
NA
C2:
PF0062726=UBA=PD(27.0=12.7),PF0062726=UBA=PU(8.1=3.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGATGAAGATGAGGATGAGCG
R:
GCATCTGCTCGAAATTCCTTT
Band lengths:
334-1241
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: