MmuINT0025668 @ mm9
Intron Retention
Gene
ENSMUSG00000026918 | Brd3
Description
bromodomain containing 3 [Source:MGI Symbol;Acc:MGI:1914632]
Coordinates
chr2:27314977-27317263:-
Coord C1 exon
chr2:27317049-27317263
Coord A exon
chr2:27315349-27317048
Coord C2 exon
chr2:27314977-27315348
Length
1700 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTGGTACTTTGTTGTCACAGAAA
3' ss Score
5.93
Exon sequences
Seq C1 exon
GTTCCCAACAAGTGGCAGCTGTGTCTTCGGTCTCCCCAGCAACCCCCTTCCAGAACATACCCCCCACCGTGTCCCAGACACCCGTCATTGCCGCTACCCCTGTACCAACCATCACTGCAAACGTCACGTCAGTTCCAGTCCCCCCACCCGCTGCACCGCCTCCTCCTGCGACACCCATCGTCCCTGTGGTCCCTCCCACACCGCCTGTAGTCAAG
Seq A exon
GTGAGCTTCCCTGAGGCCTGCATGGCTGTCTAGTGAGGAAGTCATTTGGGGGTCCAAGCCCCCTAAAGTTTCTGGGGCAGGTGGGAGCTCTGCTGCCTCTCCAGGTACAGCTGTTTGGAAAGGTTTTCTGCACAGACAAGAAGACCGAGGCTCAGGGGTGGAGGTCACATGGCTGGTGCTGGCCGAGCTGGACTTGCACCCCAGCTTCTTTGGCCTGGTTGGGGAAGGTGGAGAAGGTGTGGGCTATAGTGAGAGCAAGACGGGTCAGATCATCTCTGGTCATCTCTAAGGAGGTGATGGCCAGTGACACCAGCCTGGATTCGTAGGGGCCTGCACAGTTGTCCCTTGTTTGCTGGGCGTTTCCACAGTGGACACTGTCCTGCTCTGGCCAGGCCCTACTTGGGCATAGGTGGAGTGGAGACTCTCTGTGAGGTGTGGGGTTGGCCAGGCCTATTGAGTCTCCACTTTGAGTAGGGCCCGCAGCAGGCACTCATGTGTATTATCTTCTTCAATTTGATCCTCACAGCGACCCTCTGGGGCAGGCAGTAGTCCCCCCTCTTACAGATGAGGAAACGGGCGCTCAGGGGTTAAATGGCTCTCCCAAGGTAAAATGCCACCTCCGTTGCCTTCCCTCCCCCTGTGGCCTTCACTGCCTGCACTTCCCGGTGGCGCCTGGCCAGGCTGTTTGCCACATCGAGTTTGCCCTCCCACCCCAGGTCCTATGCAGCTCGTGCTTGGTGCTTGCCATCCTGTAGGTGTCCATCAAATGTTTTTGGATGGCCAGCTTGTGCCCCTGTCAGCCTGAGGGTGGCAGCTTGGCTGGGGAAGTAACTAGGGGGCTGTCCATGGCAGGTTCTGTTGCTGTCATCTGGCCTGTGAGTTTTTGTGGCCAAGCAACTCAGAAGAACCCGCTGAGCAGGTCTCAGTATATACCGAGTCCTGGTCCTAATTCAGTGGCAATACCTATTGGTTGGGCTCTTCAGGCTGTGGCAGAGACCCCTTACCCCCTCAGGTCCCTTGGCAGAGACTCTATGTGTGTCAGCTATGAGCAGCCAGCTCCACGTGCACCCGTGGAAGGCTGTGACACCTTCTGGGCCCTCTGCACTGCCTGTGCCTTCCAGATAGAGTCCTGATCCGTTTATGCCTATAGCCCTTGGAGTCTCTTGGCTTCTAACTGCTGTGGCTGCTTCATGTCTCCTGGTCAGGCTGCCCCCACCCATCTAGCCTGGAATGCTCCTCCTGCCTCCCCTCCTTCTGCTCGATTTGTGTCTGTTCTTGAAGCACCTGCTCAGGGTCTGGTCTGGCACTTTCTTCTTGGCCTTTAAAGCAGGGAGTTCTCGTCCCTGGCAGCAGTCTATGGTGTTTCTCAGATGTTGGGTGAATCCCCTGTAGCCCCTCATGCTGCTCAGGTCAGTGGCACGCTCACCCCACCCACCTGGATGGCTGAATCCTCAGGGCTGACAGGGAGAGTCCGAGCCTCACCACGGCCAGCTGTGTGACCTTGGGCCCTGGGCCTGGCCCCTCTGAGCCTCAGTGTCTTCTGGACTGTGGGGACAGCTGAGAAGGAAACAAGACCCTGCATGTGGTCGCTAGCTTGGCACCTGGCAGGCAGTCTGCACTCTGGAGGTGTAGCAGCTGTGTGACACATCTCCCTGTGCAATTCCTTGTTGCTGGAGCTCATTGGTACTTTGTTGTCACAG
Seq C2 exon
AAAAAGGGCGTGAAGCGGAAAGCAGACACAACCACACCCACAACATCTGCCATCACTGCCAGCCGGAGTGAGTCTCCCCCACCACTTTCAGAGCCCAAGCAAGCCAAGGTAGTGGCCCGAAGGGAGAGCGGGGGCCGCCCCATCAAACCTCCCAAGAAGGACCTGGAAGATGGTGAGGTCCCACAGCACGCGGGTAAAAAGGGAAAACTGTCCGAGCACCTGCGGCACTGTGACAGCATCCTCCGGGAGATGCTGTCCAAGAAGCATGCTGCCTATGCGTGGCCCTTTTACAAGCCAGTGGACGCGGAGGCGCTGGAGCTGCATGACTACCATGACATCATCAAGCACCCCATGGACCTCAGCACGGTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026918-Brd3:NM_001113574:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.968 A=NA C2=0.661
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043920=Bromodomain=PU(52.8=37.9)
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:
ACCCCCTTCCAGAACATACCC
R:
CCTCACCATCTTCCAGGTCCT
Band lengths:
352-2052
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: