MmuINT0024149 @ mm9
Intron Retention
Gene
ENSMUSG00000026987 | Baz2b
Description
bromodomain adjacent to zinc finger domain, 2B [Source:MGI Symbol;Acc:MGI:2442782]
Coordinates
chr2:59762718-59764217:-
Coord C1 exon
chr2:59764077-59764217
Coord A exon
chr2:59762973-59764076
Coord C2 exon
chr2:59762718-59762972
Length
1104 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
TACCTGTGTTCTCCTTGCAGCCC
3' ss Score
11.7
Exon sequences
Seq C1 exon
GAAAAAGAACGATTGAAGCAAGAGAAACGTGATGAGAAAAGATTGAATAAGGAACGCAAACTAGAGCAGCGGAGACTGGAGTTAGAAATGGCGAAGGAGCTAAAGAAACCTAAGGAAGACATGTGCTTAGCAGACCAAAAG
Seq A exon
GTGACTCCTGCCATGCCCTCCTCCAGTTGTCTCACCAGATCCCTTTTTCCAGAACAACCATTAGTTTCCAAGCCTAGGTCAACTGTCCCTGTGGTGGCAGCCACTGTGTCACTGAAAACCTCTCACTTTTCATAACTAAGCCATGGAAACCAGCAAGGAAAGGTCAGGGAAGCAGACGTGCTCCGTGGCTGTGTTACACTGCGCGGACACTGAGGCACAGAAAGGCTTCACACCGCAGAGTCCTTAGTGAATTAGAGTGAGCTGTGAATTCTCCGGTACATTAGCAGAAACTTAGCTGTTAGCCAACCTTTAAAGGAGGTGTTTACTACATGCTTGGTACAGTTCTAAGTACCAACAGGAACCCCTTGGTACTAGTTTCATGTGTTTGGATATTTACATTTTCCTAACCAGCATGGGTCTTTCCTGTAAGTCAGCTAACACACTTACTAAATTTACAGTGACCAGGCTTTTAAAATTCGAACTGGATGCTATTTTCTTGCAACTTCTCTTTTCACTTAAGTCATGTGAATTATCAAAAATATATTTAGTTAAACCCAGAACAGAAGAGGAAGAAATTCTCCAGCCAACCAGCTTAGCCAAATTGATGAGCATCCGGTTCAGTGGGAGGCTCTGTTTCAAAAAGTGAAGTGCGTGCATAAATGTGGGGAATGGCTGGTGGGATTGCTCAATGAGAAAGTGTTTGCGATCAAGCCTGACAATTTGTATTCGATCCTCCAGAGCCCATGTGATAGAAGGAGAAAATCTACTCACATTGTTGCAAGCACATACCTGCATACATGCACCACACACAGACAGACCAGTAACTTGCATGCTCATATCTGTACATGTAGAACACAAACAGGTAGGAAGGTAGGTGGATGGATGGATGGATGGATGGATGGATGGATGGATAGATGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATGTTTAGTAAGGTAGAGAGCAACTGAGGAAGGCACTTAGTGTCAACATGTGTGCATACACTTGAATTCATACATAATGCTGTATGTACAAATAAGGTCCTGGTTTGATTTTTAAACTTTTCAATTTTACCTGTGTTCTCCTTGCAG
Seq C2 exon
CCCTTGCCAGAGTGGCCTCGCATCCCGGGACTTGTGCTCTCTGGAACCACATTTTCAGACTGTCTCATGGTGGTGCAGTTCTTACGAAACTTTGGTAAAGTTTTGGGCTTTGATGTGAATATTGATGTTCCAAACCTCAGTGTTCTTCAAGAGGGATTGCTAAATATAGGGGACAGCATGGGTGAAGTACAAGACTTGCTTGTGAGGCTCCTCTCAGCTGCTGTATGTGATCCAGGTCTAATTACAGGATACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026987-Baz2b:NM_001001182:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.626 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0279112=DDT=WD(100=74.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGATTGAAGCAAGAGAAACGTG
R:
GAGGAGCCTCACAAGCAAGTC
Band lengths:
346-1450
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: