MmuINT0025664 @ mm9
Intron Retention
Gene
ENSMUSG00000026918 | Brd3
Description
bromodomain containing 3 [Source:MGI Symbol;Acc:MGI:1914632]
Coordinates
chr2:27301101-27304846:-
Coord C1 exon
chr2:27304721-27304846
Coord A exon
chr2:27304101-27304720
Coord C2 exon
chr2:27301101-27304100
Length
620 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
CCCCTCCTGTGTCCTTGCAGAGA
3' ss Score
12.63
Exon sequences
Seq C1 exon
CAACAAGCGGGAAGAAGCAGGCAGCCAAATCGAAAGAGGAGCTAGCTCAGGAGAAGAAAAAGGAGCTGGAGAAGCGGCTGCAGGATGTCAGTGGACAACTGAACAGCAAAAAACCCACTAAGAAAG
Seq A exon
GTAACCATTGAGGCCTTTCATTGTGAGCAGGAGAACACGTCAACCTCCTAACACCTCCTAGCCTTTAAGAGTGGGGGCATCTTTGGGCGCTAGGGTGGTTACAGGTAGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCTTCTAAAGGTCTATGCAGTTGGGCTCTTGGAAAGATCTCCTTGGGGTTGGTCTTGATGCCGAGCGCCTGCTCACCCCTAAACATCGGTCCCCAGCTGTAGAAAGCGGTGGGTTTCTGGCTTTCTAACCCACCATGTTAAATTGGTACAGTGAGCAAGCACTGTCTGCAGTCCAGAGCTTCTGCATAGGGTTTGCTAGGCCTTAGATTTGGGTGAGTAGGTATTTTTGTCCCTTCCTTTTGCTTTGGCTTCAGAGATGCTCTAGAAGAGCAGATGTATAGGCACTGGTCAGAGTCTGAGACTCAGTGGGGATCCTACCTAGACAAGTGTCTTAGTGCAGCCTTGTGGCCAGACAGGTGACCTGTGACAGTGTGGCACACTGCTCAGCAAGGGTCTCCCCTCCTGTGTCCTTGCAG
Seq C2 exon
AGAAGTCCGGCTCAGCTCCCTCAGGAGGCCCATCAAGGCTCAGCAGTAGCAGCTCCTCTGAGTCTGCGAGCAGTAGCTCCAGTGGATCGAGCTCCGACAGCAGTGACTCAGAGTGAACTCGGACTGGGACAGAGCTGGACAGATGGACGTGGTGCACGCCAACGCAGTGTCCCCTCCTATGGTTAATATACTTTCGTTCCATGGTGTGCAGGTTTTCTTTTACTTCAGTGTTATGATCTCTTCCAGCTGTGCTCCAGTAGGGCGGAGAGCCTCGCACGTGCACCAGACCCCATGAGAGGGCCGAGCTCTGCGAGGGGGAAATGCCTTTGCAGCTCCATTTAGTTGTTTGGAGACTGCTCCTGGGATGCTAACCTGATGGCCATAGACACGGTGGGCTGGAGGCGTGGCTGGATCTGCCCAATCCTTCCTCAGGACCAGCCTCTCCCTTAGTAACTTGAAGGAAGCTTTGCAAGGGTGTTTCTCTGGAATGGGTTCTGTGTTTGAAAGCTGTTAGAACACTAACCAGCAGGTTACTTCTCTCCGCAGGGGCTGAAGACAGATGTGTCAGCCCATGGGAACCAGCCTGGGCCCTAGTGGAGGGTCCTGGTAGCTGCAGACCAGAGCCTCACACCTCTGGGTTGGGTGTGGAGGAAGAGGGGTACTGAGTTCCCTGGTCCTTTGGCTGTGTGTGCAGCGTGCAGATTTCGGGACACCGAAACTTTTACCTCAACTTAAGGGAATAAAAACAAACAAACAAAAAAAGATTAAAAAAAAAAACAAAACAAAAAAAACAAAACAAAAACAAACCTTTTTTGTAAGTTCATCCATTTTCTACAGAAGTCCAGCCCAGAGTCCCCACTTTGCTAGTGCTGCCTGGCTGCCACCGCCTAACGCTCTGAACCACCACCCCAGGTTTATGTATATATAAATACTTTATTTATTAACATCATTGGTCATTTTTTAAAAAATGAAAAAGAAAAAAAAGAAGAGAAAAACCCATAAATAAGTGCATTGAGAAGAACATGGAGAGGATGCTGTCCTCTGCAACAGAGACAGGCCCGTGGCGGGGCGCCTCTGGTCCTGGTGCTCATCACGGCTGGCTTCTCTGAGCTCATTGGCTGTTTGTTTGTTTGGTTTTTTTTTTTTTTTTTAATGAAATGTGGGGACTTTGCAAGCGTAGACGCCCTTCAGCTGTAGCACATCTTCATTTTATAGTATCTATTCAGTTTGTTCTTACTAACTTCTGGTCTTTTAAAAGACGTCAACGGAGGAACCTCGGTTCTTCAACACAAGCTTTGTATGTAAGCCGAGAGAAAAGTCATGTATATCAGGCCTAGGTCTTGACACTTAATTTTCTATTGTAAAAAGTAATAATATACAGAGTCTAACAGAAGGTCCTGTTGGGTTTGTTGTTTTTGAGGCTGCCGAATGGTTTTGGAATGCAGGGTCAGCCTTGGAGTATCTCTGAGCATTGTGGCCTCAGCCAGGAGCGCACTGGCCAGTCTCCCAGGCCTGGAAGCACTGCAGTGTGCAGAGGCTCTCCTTGACCTTTCTACTTTTGACACGGGTCCCTGTTCGAGAATTTCCAGTTAGCCCCAGAAGAGACTGGTTCTCCTGACCCCCACCCGAGAGCGAGAGCGCCAAGTGCAGGGCCTTGTGTTGTGTGGTTTTACTTGGGCTGGGGGTGGTTCTTGCGGTTTCTTCCATTGCTTCTAGGCAGAGCCAAGGACTCATCCTCACCATCCATACATGGGAGATATTTAAAGTTTCTAAAGTCGATCCCACCAGCCCTCGATGTGCACAGGCAGTGGGTGTCAAGCTCGGGAAGTGGCTGGCTGGCTGGCTGGCATGTCTAGACGCCTGGTGAGTTATCAGCCAGTTAAACTTGTAAGCCAGTTTTGTTTATAATAAAGATATAAGTGGATTTTAAGGTTCCATTTTTTTAAGGTTACCCTTGTTTTTCAAAGGTATTTTTTAAACAGATCTTTAATAGAATATTTAAGCTGTGACTGTAAGAAATAAACAAGAGTAAACTGACAGGCCTTCCTTCACGTGGGGTCTCAGTGGTGGCCTACCATGACAGCTTGGTCAGTGTGCCTAGGCAGGGCACATTGCCTGGGCATGTGTAGAGTGAGTGCCCCTGTGAGCTGCTAGGCAAGCAGAGTCTGGCTCTGAGGTGATGTCCCCGCAGCAGGGTGGTGGTACAGAGCTGGGCATAGGGTGGAGGTCTGGCATTCCTGTGGCTGTGGTCCCTAGTAAGCAGCCTTGGTCATTGGTGCTTTTAACTTTTTTTTTTTTTCTTTTTGTCCAGACTTAAATTGTTTTGTCTTCAGAGTTTTGGAGGACCCCGGTCCCCACAATGCCAGGCTGCAGGATAACTGCCATCCCCTTCTGTGAGTTATGTACGGGGACTTAGACTGTCCTGTGCAGAGGTGGAGGGCAGCTGTCTACAGGCTTCCTAGAGGTCACATGCAGGACTGGGGTGGCCACTTGGCAGAGTCCTTGGGGTTCAGACCTCCACAGGCTAGGTAGCTCAGCTTGCTTACAGACTGGAGACATTTTCTTGTGTGGTTTTCTGGGTTTCGTCCTTCTGCAGCTGTCATGGCTTTACAGTCACTTGGGAAATGCAAGCCACTGTTAAAGCTTTGTCCTGTTCATCACTGTCCCTGCTCCTGGCATAACACTTCCAGAGGCTTTCCTTTTTTATATATATATCTATATATATATATATTTAAAACGTTTCTTTTCTGTATGATGTGCATGCAAGTTTACCGTAACTTTTCTTAAACTTTTTAGTGCCGTTTCTAGTATATTCCTGTAAATGTCAGTTACTGAAAATGAGTCCATTGTAAGTAGTTTAGCTTGTTTTTTGCAATGCCGGCCTCAACACCACAGAGTAAAAAAAAAAAAAAAACGGTAGGAAGTACTCTGGTGTCTCTGGTAATCATGAACCTTTCTCCTAGGGTGTTTGTTTTGTTTTCATAATAAAAAGGGAAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026918-Brd3:NM_001113574:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CGAAAGAGGAGCTAGCTCAGG
R:
TGGAGCACAGCTGGAAGAGAT
Band lengths:
352-972
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: