MmuINT0024127 @ mm9
Intron Retention
Gene
ENSMUSG00000040054 | Baz2a
Description
bromodomain adjacent to zinc finger domain, 2A [Source:MGI Symbol;Acc:MGI:2151152]
Coordinates
chr10:127562555-127563297:+
Coord C1 exon
chr10:127562555-127562701
Coord A exon
chr10:127562702-127563073
Coord C2 exon
chr10:127563074-127563297
Length
372 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TCACCTGGGCCTATCCTCAGCAG
3' ss Score
3.85
Exon sequences
Seq C1 exon
ACCTGCCTGGTCTGCCGGAAGGGCGATAATGATGAGTTTCTCCTGCTGTGTGATGGGTGTGACCGAGGCTGCCACATTTACTGTCATCGGCCCAAGATGGAGGCTGTTCCAGAAGGAGATTGGTTCTGTGCTGTCTGTCTGTCCCAG
Seq A exon
GTAAGGCTTCTGCTCTCCCATCTCCATTCTCAAGCAAGACTCCGAGATGTCTTCATCTTCCTTTCTTTAAGCAACAGTCCTCAGATGTCCTGGACGGACCCTCAGGTGCTGCTCCCAGGAATGGGCCTGTGACAGCATGTTTGGGTTGAGTCTGTGTTTGAATAAGCCACCTACAGTCTTTAAGCCCCAGTCATTTCCTCTATAAAATAGCAGTTGCCATGCATTTTACTGACCCTCCCATTGATTGTCTGAATGAGTTCACATGCTGGCTTGTATGTGAGCATTTGAAGCCACAGTCATGGGTAGGCAAGACTGATGAGCAGAGGGTGAGCCGCGCCACCCACACTGCTGCTCACCTGGGCCTATCCTCAG
Seq C2 exon
CAGGTAGAGGAAGAGTACACTCAGAGGCCTGGTTTTCCAAAACGAGGTCAGAAGCGGAAAAGTAGTTTTCCACTGACCTTCCCAGAAGGTGACAGCCGGCGGCGGATGTTGTCAAGGAGCCGAGATAGTCCAGCAGTGCCTCGGTACCCAGAAGACGGGCTGTCTCCCCCCAAAAGACGGCGACATTCGATGAGAAGTCACCACAGTGATCTCACATTTTGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040054-Baz2a:NM_054078:27
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.573
Domain overlap (PFAM):
C1:
PF0062824=PHD=WD(100=100.0)
A:
NA
C2:
PF0043920=Bromodomain=PU(1.2=1.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAAGGGCGATAATGATGAGT
R:
CGCAAAATGTGAGATCACTGTGG
Band lengths:
355-727
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: