MmuINT0025663 @ mm9
Intron Retention
Gene
ENSMUSG00000026918 | Brd3
Description
bromodomain containing 3 [Source:MGI Symbol;Acc:MGI:1914632]
Coordinates
chr2:27304721-27306069:-
Coord C1 exon
chr2:27305777-27306069
Coord A exon
chr2:27304847-27305776
Coord C2 exon
chr2:27304721-27304846
Length
930 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
ACTGCTCACTTACTCCACAGCAA
3' ss Score
8.72
Exon sequences
Seq C1 exon
ACAGCTCAAGAAGGGCGGCAAGCAGGCATCTGCGTCCTATGACTCAGAGGAAGAGGAGGAGGGCCTGCCCATGAGCTATGATGAAAAGCGACAACTTAGCCTTGACATCAACCGGCTGCCCGGCGAGAAGCTAGGGCGTGTGGTGCACATCATTCAGTCTCGGGAGCCCTCGCTTCGGGACTCAAACCCAGACGAGATTGAGATTGACTTTGAGACCCTGAAGCCAACCACGCTGCGGGAACTGGAGAGATATGTCAAGTCTTGTTTACAAAAAAAGCAGAGGAAACCATTGT
Seq A exon
GTAAGTTGTCTGGGAGAGCATGGTTCTGGTAGCCTCTGCAGCCCCTGAGAGCAGGCACTGGGCCCACAGCTGCCTTGCTGTTTAAGCCTGCCTGCCTGCCTACCACAGGCCCCAAGGACGTCTGTGCTCAGCAAGTGCATTCGTGCTGCCACATCCTCTTCCCTGTTCTCTGATAGGGAAGATTCGTATTGGGCCCCAACTGGCCTGTCGTGAGAAATAGGATGTGGGGTTGGCTCAGCCTATTCATTCACGTCCAGGTAGGGCCCTTCTCATACCCCTTCCTAAGGCTCCTTCTGGGGCTTTGGCTGTAGGGAAGAGTCCCATTCCCTTCACTGATGACGTGTGTACAGAATCTCCACAGGATGGACCCTGACCTAAAGTGCATCCTGAGTTTGATGGTTTCAGCAGACAGGGACCAGTCACTGCCTGGGTTTGCAGGTGCTAGAAGCTGGGAGGAAGAGAAGTCCCAAGGCAGCCCCTCACTATCTAGGCTCATGCCAACCTACATGTGGCTGTTGAGTGAGGTGTGTTTGGTCCTTTATCACTCTGGAACAACAAGCTTGAGGAGGAGGGTGATCCAGGGGCCAGGGAGTGAAAGCTGGACTCTTTCCTAGACCGTGGCAGGCTCTGTGGCTCAGGCAGGAGGAGGAGCTGTACTGTGGGAGGACTGAGACAGGGTCTGTGCCCTTCCCATAGGAACAGATGACAGGTCGTAGCCCAGGCTCCGGAGCCAGGGAGGCAGAGAGATGAGGATATGTGGGAGCACTCAGTAGATGTGGTGTGGCAGTGGTGGTTCCAGGTCACCCTGCCATTTCCTGCTCCGGCTCCCGTGTCAGAGATACACTGATCCTGCAGCTAGGCCGGTGGCGGCGGTGCGTGCACAGGTGTGTGGGACTGGGACTTATGTCTCACTGCTCACTTACTCCACAG
Seq C2 exon
CAACAAGCGGGAAGAAGCAGGCAGCCAAATCGAAAGAGGAGCTAGCTCAGGAGAAGAAAAAGGAGCTGGAGAAGCGGCTGCAGGATGTCAGTGGACAACTGAACAGCAAAAAACCCACTAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026918-Brd3:NM_001113574:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.926 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:
CTCAGAGGAAGAGGAGGAGGG
R:
GTCCACTGACATCCTGCAGC
Band lengths:
347-1277
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: