MmuINT0025668 @ mm10
Intron Retention
Gene
ENSMUSG00000026918 | Brd3
Description
bromodomain containing 3 [Source:MGI Symbol;Acc:MGI:1914632]
Coordinates
chr2:27459457-27461743:-
Coord C1 exon
chr2:27461529-27461743
Coord A exon
chr2:27459829-27461528
Coord C2 exon
chr2:27459457-27459828
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:ENSMUST00000028282:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.970 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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types