MmuINT0173557 @ mm10
Intron Retention
Gene
ENSMUSG00000000903 | Vpreb3
Description
pre-B lymphocyte gene 3 [Source:MGI Symbol;Acc:MGI:98938]
Coordinates
chr10:75948300-75949657:+
Coord C1 exon
chr10:75948300-75948409
Coord A exon
chr10:75948410-75949142
Coord C2 exon
chr10:75949143-75949657
Length
733 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
TGGGTCTGTGTCTTTTTCAGTCT
3' ss Score
10.19
Exon sequences
Seq C1 exon
TACAAGCATCCGGAGCACAGTACTGCAGAACTCTAGGTCGGCCTTTCTGCTTCTGGCCATGGCCTGCCCTGGTTGCCTGCCTCTGCTCCTGATAGGAACCTTTGTGGCAG
Seq A exon
GTACGGCACATCCAGGAACGAGGTGGGGGTTGGCACCAGCTCAGGGAAACTCATGCAAAGAAGTGAATCAACAGGGTAAGGGGGGTGGATCCTAGGAGAGGCATTGGGGTAGAGCAGAGAGCCGGCTGTAGGCAACTCTGTCCAGGACTAGGGGAAAGCCACTTTCCGTGTGGACCTTAGCTTCCCAATTTGTGGGTCTGCTTAGACTGTGGTCCTTCAGCGTCTCTGAGGAGAGGGCAACTTCTTGCCTTTGTTTCTCAGAGAGGAGGCTAATAAAGATGGGCAGCCCCCTGCTCCACAGATCCTTTAAGGCAATCCTCTGTGGCCAGCAGTTTGAAAGTCAAGGATGACAGTTAAGCATTCTGAGAGGTCTGGAGGGCAGTTACTTTGTAGCTGAGGTTGAGTTATTAGATTGAGGGGTAAGGGTAGAGAGAAGGAGGGTAGTAGGTACTAGGGGGACCTAGAAGGTCACACTTGAACACTAGGCTCTCAACTGAACATGGATTCTTGGAGACAGGACAGTAATGCTAATTTAGGGGTCACTTATTCACAAGCCCCCATTCACAGAGGAAACCGGAACGGTAGATGGAGCAAACTATGTCTCACAGAACCATCCAGGGCACTAGGCTCTGAAAAATATTTGGGAGTGGGAATCTTTGCAGTCTGATAAAATATTTGTAGCAAGGTAGGAAGGAGCCCAGGCTAGCCCTTAGTGGGTCTGTGTCTTTTTCAG
Seq C2 exon
TCTTTCAGCCAACTCTGACCCAGCCTGACGCGTTCTCAGTCTTCCCAGGCCAAGACGCTCATCTCAGCTGCACCATCAATTCCCAGCATGCCACCGCTGGAGATATTGGGGTGTCGTGGTACCAGCAGCAGCCAGGAAGTGCTCCCCATCTTCTCTACTATTACGCAGAAGAGGAACACTATCGGCCCGCTGACATCCCCGACAGATTCTCAGCTACCGTGGATGCAGCCCACAACGCCTGTATCCTCACCATCAGCCCCGTGCTCCCGGAGGATGATGCCGATTACTTCTGTTCCATCGCCCACACCTTTGAACCCTAGGGCTGGGTTGAACATCTTCTGTCTCCTAGGTCTGCCCCCTGACCTTGGGCCTCCTCTTTTTCTCTTAAGTCTTGCTTTCTTTCCTTCCTCTGTGAAATGAGTTAATAACACTCGACGGGTCAACCACTGTCCTGAGAACTGTGAGATCCTGTGTAAACAAATAAATAAAATAAATGTCAAATTGGAGGATGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000903:ENSMUST00000000926:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0768612=V-set=WD(100=97.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAGCACAGTACTGCAGAAC
R:
GTGAGGATACAGGCGTTGTGG
Band lengths:
350-1083
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