MmuINT0115812 @ mm9
Intron Retention
Gene
ENSMUSG00000034673 | Pbx2
Description
pre B cell leukemia homeobox 2 [Source:MGI Symbol;Acc:MGI:1341793]
Coordinates
chr17:34730517-34731059:+
Coord C1 exon
chr17:34730517-34730590
Coord A exon
chr17:34730591-34730811
Coord C2 exon
chr17:34730812-34731059
Length
221 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGT
5' ss Score
9.57
3' ss Seq
TCTGTTTGCCTGCCTGCTAGGCC
3' ss Score
8.15
Exon sequences
Seq C1 exon
GAAACATGCCCTAAACTGTCACCGAATGAAACCTGCCCTGTTTAGTGTCCTGTGTGAAATCAAGGAGAAAACTG
Seq A exon
GTACGTAGGTGCCCCTCTGATGCTCACTTCTGGGAGCAAGACTCTGCCTTAGGGCTTAGAGTTTGACAACTTGAAGCCTTGAGGAAATTGAGAGCCACGGAGGTTGCATGAAAGGAAGTGGGGAAGGGAAGCCCTGGAGCCCTGGGACCGAGGATGGAGCTTTGACCGGGGATGGGGGTGGGGGGTGAGGGGTTCCTTAAGTCTGTTTGCCTGCCTGCTAG
Seq C2 exon
GCCTTAGCATTCGGAGCTCCCAAGAGGAGGAGCCCGTGGACCCACAGCTGATGCGCCTGGACAACATGCTTCTGGCAGAAGGTGTGGCTGGACCCGAGAAAGGGGGCGGCTCCGCAGCAGCTGCTGCAGCTGCCGCAGCCTCCGGTGGTGGCGTATCCCCGGACAACTCCATCGAACACTCAGACTATCGCAGCAAGCTTGCCCAGATCCGCCACATCTACCACTCAGAGCTGGAGAAGTATGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034673-Pbx2:NM_017463:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.651
Domain overlap (PFAM):
C1:
PF037928=PBC=FE(12.6=100)
A:
NA
C2:
PF037928=PBC=FE(41.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGCCCTAAACTGTCACCG
R:
TGAGTGGTAGATGTGGCGGAT
Band lengths:
298-519
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: