HsaINT0018495 @ hg19
Intron Retention
Gene
ENSG00000169925 | BRD3
Description
bromodomain containing 3 [Source:HGNC Symbol;Acc:1104]
Coordinates
chr9:136905156-136907073:-
Coord C1 exon
chr9:136906882-136907073
Coord A exon
chr9:136905392-136906881
Coord C2 exon
chr9:136905156-136905391
Length
1490 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
AGCCGCCCGCTCTTTTCCAGCTG
3' ss Score
7.84
Exon sequences
Seq C1 exon
GACGTGTTTGAGATGAGGTTTGCCAAGATGCCAGATGAGCCCGTGGAGGCACCGGCGCTGCCTGCCCCCGCGGCCCCCATGGTGAGCAAGGGCGCTGAGAGCAGCCGTAGCAGTGAGGAGAGCTCTTCGGACTCAGGCAGCTCGGACTCGGAGGAGGAGCGGGCCACCAGGCTGGCGGAGCTGCAGGAGCAG
Seq A exon
GTGGGCACTGGCATGCTTGGGTGGGGTTCAGGGGCTGAGGCGGGATTGCTGGCACAGCAGCCCAAGGTCCGTCCCTTTGCATGGTTCCTTCCTCTGCCCCTGTCCCTCAGCAGCCGCGGTAGTGCTTCCCCGTAAAGACACTCGGAGTGCCCTCCCCAGGTCTGGGGTGGTGCGAGCCTAACCCACAGCACACGTGGGTGGCTGCGGGGACACGTGGCTGGGATGTTTCTGGAGACCTGGCGGGCCTCAGGTGGGAGCTCAGGGGTCATGTGTGGTTATGTGTGCCTTGCTCTGCTCCAGAAAGGCCTGTGAGGCACTTGCAGAGGCCACAGTAGTGCCTGGGCTCCAAGCAGTCACTTGCAGTGGGGTGGGGTGCAGGCTCCAGGGTCCTGAGGGCCCTGCCGTGCAGCTGCCCAGCCCCAGTCCCGCTGCCAGGCTGTGCTTCCTCCCCCTTCTCTGCTTTCCTCGTTTGCAGTATGGGACAAATGTCACCCACTCTGAGCTGTCTTGAGGTCAGATTGAGAAAGATGTGAATTGTTTCCCCAGACCTCTGGCAGCCAGCCAGATGCATGATTTCTGGGACCCCAGATTGGGAGAAAATAGAGCAGGGCTGTCGAGTCAGGAGGGGAACAGCATGAATCAGGGCTGCAAGGACAGCGATGGCCCTGCAGTCCCCAGAGTTGGGCTGGACATTTGATTTTGAAGTGGCAAGGACACACAGCAGGGAAGACGGCTGTGAGGTGGCAGCTCCTCCACCCGCCCTCTGTCTTCCTTGCACAGACCACCCAGAGGCAGGGACAGGCCGTGGACTCACATGGGCAGTGCCTCTCAAGGGGCCTCTCCCATGGAGGTGGCTGCAGTGGGGAGGGCGAGGCGCTTGGCACAATGCCAGCTGCAGGGAGGCCCTGGATTAATGCTGGTTGCTGGCAGTGGATTGTTTTAACCCCGGAGTCCTGCGTGTTATCAAATGGCTTCCCAGAAATCACTGATGAAAATCTCCTTTGTGTGGGCATTTAAACTTCTAGAGAGTCCTTCCTTATCTGAACAATGGTAATAATAAAAATGTTAGCTGCCCACCTAATGTAGATGACGGGTTGATGGGTGCAGCAAACTACCGTGGCACATGTATACCTATGTAACAAACCTGCACATTCTGCACATGTATCCCCGAACTTAAAGTATAATACATTTTTTTTAAAAAGTTAGCTGCCCTCACCGAGTCCCTGTTGTGCCACCCGCGCAGTGCTGAGCCTGTGGCCAGGCAGCTCTTCCCCACTGCAGGCGAAGAAGCCGAGGCGGAGAGGGCTCATGACTCACTGGGGGTCACGGGAGTGAGGGGCAGAGCAGGGCCCAGGTGCTCCTGGTTCACCTCCTCACCCAGCTGAGGCAGCTCCGACATCGCCCCAAGCCCCCTCCAATCCCAGGGCGCCACGCAGCCCCAGTGGTGTGGGCCGTGCCCAGCACCTGCTCAGCCGCCCGCTCTTTTCCAG
Seq C2 exon
CTGAAGGCCGTGCACGAGCAGCTGGCCGCCCTGTCTCAGGCCCCAGTAAACAAACCAAAGAAGAAGAAGGAGAAGAAGGAGAAGGAGAAGAAGAAGAAGGACAAGGAGAAGGAGAAGGAGAAGCACAAAGTGAAGGCCGAGGAAGAGAAGAAGGCCAAGGTGGCTCCGCCTGCCAAGCAGGCTCAGCAGAAGAAGGCTCCTGCCAAGAAGGCCAACAGCACGACCACGGCCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169925-BRD3:NM_007371:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.844 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0093713=Corona_nucleoca=FE(46.0=100)
A:
NA
C2:
PF0093713=Corona_nucleoca=PD(46.7=81.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGTTTGCCAAGATGCCAG
R:
CCACCTTGGCCTTCTTCTCTT
Band lengths:
342-1832
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)