MmuINT0025648 @ mm9
Intron Retention
Gene
ENSMUSG00000024335 | Brd2
Description
bromodomain containing 2 [Source:MGI Symbol;Acc:MGI:99495]
Coordinates
chr17:34255551-34258692:-
Coord C1 exon
chr17:34258428-34258692
Coord A exon
chr17:34256846-34258427
Coord C2 exon
chr17:34255551-34256845
Length
1582 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
GTCTGTCTTCCTTGTTTCAGATT
3' ss Score
11.68
Exon sequences
Seq C1 exon
GTGGTTCCCTGGCGCCGACTCCCTGCCTCCCCAGGGACTCCCTAAGCTCCCTTTGTGTCAAGGGTAGCAGGCTCGCCATCGTCACATGGCGTGATGGAGGCTCGGTCGAGTTTGTGTGCTTTTCACGAGGACGCGGCCTGTGGGGCCTGCTGTTCCCAGCTGCGCATCCCCTCCGGGCTCTTAGCTGTTTGTCTCTGCCCCAGGGTGGGGAGGGCTCACCGGCCCAGAGCCTGGGGGCCGCCTGCGAGCGCAGTCCTGGCCTGAG
Seq A exon
GTGGGTGCTGGGAGGGGAGAGCCAGCGTGGTCCGAGCCTCCCAGTCTCCGAGGTCTAGGGTTTCTCCGGGTGGCATGCTCTACTGCCGCCCTCCTCCCCTCCCCCTGCCTGGAACAGTTGCCTCCTTGTGTGCTGCGGGGGAGGGAACGGAAAGGAGGAAAGAGTTACTTTTCCAAATTACTAAGTAGCAGCAGCCTCCCCTGTGACTCATGTGGGGGCAGGGAGGGCTGGGAATGACTGGGGCGCAGTGATTTTCCGGAATGCAGGGAAACGGGAGCGTCGTCTGGCTACCCTTTCTCTCTAAGGCCCAGCAGTTTCCCCGCTCCCCGAGTTCTCTCCCCACCCCCACCCCACCCCCGTCGGGCTTCGGCCCGGACCCGCCAGGCCCAGGTGCGGAAAATCCAGTTTGGAGGCCGGGCCGCCAGGGGGAGGGGAGAGGCCTCTAAAGTTGCTGTGTCATTGCCCTGCTCGCCGCAGCCACCCGGGCGGGGCCGCGCGCACTCGGGCGACCCGGGCCTGGTTCCCGGCGGGGAGTGCAGGGTCTCTGCTTCCAAGGCGCACTTACCCCTTGCGGGGTCTGCGCTTATCTTGCGGTCCAGAAGACGGGAGCTTGGCCGCCATGTTAAGTGCAGTGACCGAGGTTCGAGGTCGAGGGCTCATGTGGAGGGAGGGTCGCCTGGTTGCAGTTCTAGGACCTAGGCCAGTTGGGGCTATAATTGGGGAATGGTGAGCCCGCCTTACAGCCCCTCACCAACGTTAATTTACTTGCCCAGACGTGCACACCTGTCTTCCCAGCCAGGGAAAGGGGAGTTTGGGAGCGAGAGGTGTGTTCTGGGGGGATAGACGCTTTTACTTTCGCGCGAGGGGCTACCCCAGAGTTGCTTTTGCCATCTGACCTTGAGAACTGGCTGGTGGTTCCTACTTAAGTCTTGTTTCGAGTCCCAAGACAGCGTAGGGGAGGGGGAGGGGGCGAGACAGCTCCCAAAATGGCTCCTGCCCCTCCTCGGAGGCGTCCGGCTGCGGGGGGGAGGGGAGGGAGGAGGGCTGCAGAGCAGCGCCGCCGCCGCCTCCTCGGCTCGCCCTCCTCCCTGGCGCTGACCGATGGAAGAGGCGCTCCGTGGGGAGGACTCCCAGCCCGATGGGGGCGGGGGGCGTCAGCTCGCCCACGCTGGGGCGAGATGGGGCCAAGGAGCCGTGCGCTGCGCCCGCTCTCCTCACCCTGACGCCGGGAAAGTTTGCCGAGATCGGCTTTTAGGGCATGTGGACGCCTTGTGCGTTCCTAAGGCGGGTAAGTGCGCGAGAATCTGCAAATGCGGGCGGGCGGGCAGGGTATGAGCCCCCGGGGCTGGCTAGACAGTAAACACTCGGGGTGGCCTCGCATCTTTAGAGCTGAGGATTTTAGGGCAGAGCGTGGCCTTTGCTATCTGATTACTTTGGTTCGGGGAAGACGAGGTTAGTCTTGGAACGCTCCGGTCATGTGTTGGATCAGGGGACGTTAGATCGCGTCGCGGGGTTACTGTGGAGCGCTCAGCCGAGAAGCAGGCCGCGACTTCTAAGATGGCGTCTGTCTTCCTTGTTTCAG
Seq C2 exon
ATTCTCCACTGCGGCGGCCTCGCAGCCAAGAACCTTTCGCCCGCCCCGCCCGCGCGACCCGTCCCACTCTGCGCCCCGCCCGCGCCGCCAATGGAAAAGCTGCAAATGGCGCGACCAGCCTGCCGCGGGCGACCGGCAGAAATTCGGTGTGTGCAAGCCCGGGAAGGCTCCGTCAGACCTGGAGGTGGGGACAGCGTGTTGCAGGCCCCGGGGAGATGGCGCCTACACGCCGTTCGGCCTCCATCTCTCCCAGGGTTCGCCAAGCCACGGCGCAGCCAATTGGCTCGGAGACATGGCGGGGTGCCTTTTCGCCTTGGCTCTCTGCGGCACTCTGCTGCCGATAATCGACGCCTTGGAACTGGAGTTTGTGACGTCATCCTTCGAGCGGACCAATAGGAAAGGCTCCCGCGAAGAGGCGGGCCTGCCCCCTCGCCTTTGCTTCTCCAGGCGCGTGAGCGGGCGAGCACGCGCGGAGGGGGCGGGGGAGCTCGCGAGCAGGGTGGCGCGCATGAGCAGCGAAGCTCCGCCCCTCCGGCTATATATAAAGCGCTGGCGCGGGGCTCGGCGGCGCCATTTCGCGCTGGAGTGGAGCAGCCTCTAGGACGAGCTGGAGGATTGCGCCTACTGACCCAGCGTCTCGGAGCCTCTGCGGGCCGCCAGTACAATCCACGTCCATCCGCTTGGAAATGGACTTCGTCCCGGCCCGCGACCGCTCCCGGCGGACAGTGCAGACCCCATAGAAGCCCCCGAGGCTCCCCTTTCTCGGGCCCCGCCCAGTCCTCGGTGTCTGTCCACCCCTCTACTCCGCCCTCAAGAGGATTTCAAAGATGGAGGCGGCGGCTCTCTGAAACCCCTTTTTGGTGCTCATCCGCCTCCATCGGAGGTCTGACGCGGCTCTCGTGACCCCCCGGCGACCGCGGCGGGAAGAGGGGACCCCTGTCCACCGGCGGCAGGCCGAATTGACGACGGTGTCCAGTTTCGGGGACTGCCGGGTTTGCAGACTGCGTTCTCCTGTGGCTCGCCGGCCGGCAGAGGCCGCCGCCATTTTCCTGCTGTCGCCGCCTGCGGAGCGTGCAAAGCTGCCGGAGTTGCGGGGAGGACGGCGCAGGAGACAGCGTTCCCGCCGGTCCCGCAACGAGGCTGACGCCTGGAGGGCCAAGGGCAGCGGCCTTCCCCCCACTTCCCGGGTTATGCTGGGCCCGGCGGTGAGGGGAGCCGAGGCTACCCGGACTTCACGCAGCTGAGCGGCGGCGGTTCCCTGAGGTCAAGATGCTGCAAAACGTGACTCCCCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024335-Brd2:NM_010238:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCGGGCTCTTAGCTGTTTG
R:
GAACCCTGGGAGAGATGGAGG
Band lengths:
353-1935
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: