MmuINT0173557 @ mm9
Intron Retention
Gene
ENSMUSG00000000903 | Vpreb3
Description
pre-B lymphocyte gene 3 [Source:MGI Symbol;Acc:MGI:98938]
Coordinates
chr10:75411057-75412391:+
Coord C1 exon
chr10:75411057-75411154
Coord A exon
chr10:75411155-75411887
Coord C2 exon
chr10:75411888-75412391
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
GAGCACAGTACTGCAGAACTCTAGGTCGGCCTTTCTGCTTCTGGCCATGGCCTGCCCTGGTTGCCTGCCTCTGCTCCTGATAGGAACCTTTGTGGCAG
Seq A exon
GTACGGCACATCCAGGAACGAGGTGGGGGTTGGCACCAGCTCAGGGAAACTCATGCAAAGAAGTGAATCAACAGGGTAAGGGGGGTGGATCCTAGGAGAGGCATTGGGGTAGAGCAGAGAGCCGGCTGTAGGCAACTCTGTCCAGGACTAGGGGAAAGCCACTTTCCGTGTGGACCTTAGCTTCCCAATTTGTGGGTCTGCTTAGACTGTGGTCCTTCAGCGTCTCTGAGGAGAGGGCAACTTCTTGCCTTTGTTTCTCAGAGAGGAGGCTAATAAAGATGGGCAGCCCCCTGCTCCACAGATCCTTTAAGGCAATCCTCTGTGGCCAGCAGTTTGAAAGTCAAGGATGACAGTTAAGCATTCTGAGAGGTCTGGAGGGCAGTTACTTTGTAGCTGAGGTTGAGTTATTAGATTGAGGGGTAAGGGTAGAGAGAAGGAGGGTAGTAGGTACTAGGGGGACCTAGAAGGTCACACTTGAACACTAGGCTCTCAACTGAACATGGATTCTTGGAGACAGGACAGTAATGCTAATTTAGGGGTCACTTATTCACAAGCCCCCATTCACAGAGGAAACCGGAACGGTAGATGGAGCAAACTATGTCTCACAGAACCATCCAGGGCACTAGGCTCTGAAAAATATTTGGGAGTGGGAATCTTTGCAGTCTGATAAAATATTTGTAGCAAGGTAGGAAGGAGCCCAGGCTAGCCCTTAGTGGGTCTGTGTCTTTTTCAG
Seq C2 exon
TCTTTCAGCCAACTCTGACCCAGCCTGACGCGTTCTCAGTCTTCCCAGGCCAAGACGCTCATCTCAGCTGCACCATCAATTCCCAGCATGCCACCGCTGGAGATATTGGGGTGTCGTGGTACCAGCAGCAGCCAGGAAGTGCTCCCCATCTTCTCTACTATTACGCAGAAGAGGAACACTATCGGCCCGCTGACATCCCCGACAGATTCTCAGCTACCGTGGATGCAGCCCACAACGCCTGTATCCTCACCATCAGCCCCGTGCTCCCGGAGGATGATGCCGATTACTTCTGTTCCATCGCCCACACCTTTGAACCCTAGGGCTGGGTTGAACATCTTCTGTCTCCTAGGTCTGCCCCCTGACCTTGGGCCTCCTCTTTTTCTCTTAAGTCTTGCTTTCTTTCCTTCCTCTGTGAAATGAGTTAATAACACTCGACGGGTCAACCACTGTCCTGAGAACTGTGAGATCCTGTGTAAACAAATAAATAAAATAAATGTCAAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000903-Vpreb3:NM_009514:1
Average complexity
IR-S
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:
CTGCCTCTGCTCCTGATAGGA
R:
AGCCCTAGGGTTCAAAGGTGT
Band lengths:
358-1091
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: