MmuINT0024114 @ mm9
Intron Retention
Gene
ENSMUSG00000040054 | Baz2a
Description
bromodomain adjacent to zinc finger domain, 2A [Source:MGI Symbol;Acc:MGI:2151152]
Coordinates
chr10:127556680-127558381:+
Coord C1 exon
chr10:127556680-127556934
Coord A exon
chr10:127556935-127558166
Coord C2 exon
chr10:127558167-127558381
Length
1232 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TTGTGCTTCCTTCCAAACAGTCC
3' ss Score
9.44
Exon sequences
Seq C1 exon
CCCCTGCCTGACTTCACACGCATCCCTGGTTTGACACTGTCCAGTAGGGCTTTCTCAGATTGCTTGACCATCGTGGAGTTCCTTCACAGTTTTGGCAAAGTGCTAGGCTTTGACCTTACCAAAGATGTTCCTAGTCTAGGAGTCCTGCAGGAGGGACTCTTATGTCAAGGTGACAGCTTGGACAAAGTGCAGGACCTGCTGGTGCGACTGCTGAAGGCTGCACTCCATGATCCTGGTCTGCCCCCCTACTGTCAG
Seq A exon
GTAGGTGTTCCTGGGCCTGGGTTACAGTTTTGCTCTCTCCTTGAGAACACGTAAAAGCTTCCCCTAAAGCAACCACAGAAGTAAGGGAAACGTAGTTGCTTCCTGTTTCTAGCCTTTATATGCCTTTTTCTTTGCAAGGCTTCATTTGTTCATTTTCTCTTTTCTTACTTTGCAGTTTCTCTTTGTAGTCTTTCACCTTTTTCTTTTTTTTTTTTTTTTTTCGAGACAGGGTTTTTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCCAGTGCTGGGACTAAAGGTGTGCGCCACCACACCCGGCCTTTCACCTTTTTCTAGTAACTTTTTCCCTTAATTTTTAAATTCTATTTATGTGTAGACATGTTTTGCTTGTCTGTTTGTGTACCACACGTATGCCTGGTACTACACTGACCAAAAAATGGTGTTGGATCACCTGAAATCAAGACTCACAGACAGTTGTGAGCTGTCTTACGGATGTTGGCAACTCAACCCAGGTCCTATGGAAAAGCAATCACTGCTCCTAACTGCTGACCCGTCTCTTCAGCCCATGTCCCTGCAACTTTCATTCTTTTTCTCCTTTTTCCACAAACATTTCTTAGAGCTGGCTTTGGTGGTGTACACTTTTGGTCTCTGGGAGGTAAAGGCAGGTGGGCCTATTTGAGCCTGTTCCGTATAGCAAGTTCCAGGCCAGCCCAGGCTACGTAATGAGACCCTGTCAGAAAAGAAGGAAGGGTTCAAAATTTTTTTTTGTTAAGATTTAGTTTTGTTTTATGTAGACGAGTGTTTGCCTGCATGTACGCATGTGTGTCGTGTGTGTACCTGGTGCCCCTGCAGGCCAGAAGACAAGGCTGGATCCCCATAACTGGATTGTGGATAGTTGAGAACGGCCTTATGGGTGTTGAGAACCAGATCTGTGTTTAAAATTATGTTTGTTTATTGTATGTATTTGCATGTATGTATGTGTTGTGGGGAATCAGTTGTTCTTCCATCAAGTGGGTCTGGGAATTAAAGGTATTTGTATCAGACTCAGGGGCAAATTCCATGATCATCTGAGCCGTCTTGCTGACCTCATCCTTTCCTCTTACAGTTTTACCTTAACCCTGGAACTCTCCCAGGCTCCCCCAACTTGAGTTGTTCCTAGTTCCTTCTCATTTCCATTGTGCTTCCTTCCAAACAG
Seq C2 exon
TCCCTGAAGATATTGGGGGAGAAGATGTCAGAGATCCCATTGACCAGAGATAATGTGTCTGAGATACTGCGCTGCTTCCTCATGGCATATAGAGTGGAGCCATCCTTCTGTGACAGTCTGCGTACCCAGCCTTTTCAGGCCCAGCCACCTCAACAGAAGGCTGCTATTCTAGCCTTCCTTGTGCATGAGCTTAACAGCTCCACCATTATCATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040054-Baz2a:NM_054078:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.028
Domain overlap (PFAM):
C1:
PF0279112=DDT=WD(100=74.1)
A:
NA
C2:
PF156121=WHIM1=PU(80.0=55.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCCCTGGTTTGACACTGT
R:
TGTCACAGAAGGATGGCTCCA
Band lengths:
351-1583
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: