HsaINT0018510 @ hg19
Intron Retention
Gene
ENSG00000141867 | BRD4
Description
bromodomain containing 4 [Source:HGNC Symbol;Acc:13575]
Coordinates
chr19:15353711-15355411:-
Coord C1 exon
chr19:15355042-15355411
Coord A exon
chr19:15354299-15355041
Coord C2 exon
chr19:15353711-15354298
Length
743 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCGGTGTTGTGTTCTTCCAGCTT
3' ss Score
8.58
Exon sequences
Seq C1 exon
CACCATCATCACCACCATCAGCAGATGCAGCAGGCCCCGGCTCCTGTGCCCCAGCAGCCGCCCCCGCCTCCCCAGCAGCCCCCACCGCCTCCACCTCCGCAGCAGCAACAGCAGCCGCCACCCCCGCCTCCCCCACCCTCCATGCCGCAGCAGGCAGCCCCGGCGATGAAGTCCTCGCCCCCACCCTTCATTGCCACCCAGGTGCCCGTCCTGGAGCCCCAGCTCCCAGGCAGCGTCTTTGACCCCATCGGCCACTTCACCCAGCCCATCCTGCACCTGCCGCAGCCTGAGCTGCCCCCTCACCTGCCCCAGCCGCCTGAGCACAGCACTCCACCCCATCTCAACCAGCACGCAGTGGTCTCTCCTCCAG
Seq A exon
GTGAGCCGTGGCCTGCCCCAGTGTGGGTTGAGACCCCTTCCTGCCTCGGTTTACCCATGTGGTGTCCGAGCACTCTGGCTGGGCAGCTTCTTAGCCTCAGCTGCTCTGGTCTCTAGAGGGAAGATCTGTGGCTTCTCGAGGCCATCTTGGAAGTTAAAGGAGATGCCTCAAGACAGGTCATGCATGGAGTTATTAACACGTTGATTCAGAAGATTTTTGTTTCTAAAACACTGACATCATTTGAGTAACAATCTAGATGATTTTGACTTATTTCTGCTGCTGGGCCAGGCGTCATGTTAGATGGGAAAAGCTGGGACCCCTCTGCAGCTTTTCTCATCAGGGGTTGGGGGATGCACTCATGAGATGGGATTCCTCCCATGGAACCTGGACAGCACTCACCTGGGGGATATGGGGACAGGGCCACCTTCCTGGGGGCCTGGGGAATGGCCGGGCAAGTGAGAGACCGAGTTCTGCACTGAGGCGTGAAGGGCCATTGTGAGCATGGGGAGCAGGAGCTGGGGACACAGAGCATAGGGCAGGATGACACCGCCCTAAAGCTCTCTCTGGAAGCTGTTTACTGCTCTGGAGTTTGTGGGAGGCCACGGTAGGTGGGGAGGGAGTGCCAGTTTGAGGGAGGCCAGTAGGAGAGCACTGGAGTCCAGATGAGGTCAGGATGGAGCAGAAAGGCCAGGCTGGGGCCACAGGTGCTCAGGCCTCACCGCCTCGGTGTTGTGTTCTTCCAG
Seq C2 exon
CTTTGCACAACGCACTACCCCAGCAGCCATCACGGCCCAGCAACCGAGCCGCTGCCCTGCCTCCCAAGCCCGCCCGGCCCCCAGCCGTGTCACCAGCCTTGACCCAAACACCCCTGCTCCCACAGCCCCCCATGGCCCAACCCCCCCAAGTGCTGCTGGAGGATGAAGAGCCACCTGCCCCACCCCTCACCTCCATGCAGATGCAGCTGTACCTGCAGCAGCTGCAGAAGGTGCAGCCCCCTACGCCGCTACTCCCTTCCGTGAAGGTGCAGTCCCAGCCCCCACCCCCCCTGCCGCCCCCACCCCACCCCTCTGTGCAGCAGCAGCTGCAGCAGCAGCCGCCACCACCCCCACCACCCCAGCCCCAGCCTCCACCCCAGCAGCAGCATCAGCCCCCTCCACGGCCCGTGCACTTGCAGCCCATGCAGTTTTCCACCCACATCCAACAGCCCCCGCCACCCCAGGGCCAGCAGCCCCCCCATCCGCCCCCAGGCCAGCAGCCACCCCCGCCGCAGCCTGCCAAGCCTCAGCAAGTCATCCAGCACCACCATTCACCCCGGCACCACAAGTCGGACCCCTACTCAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141867-BRD4:NM_058243:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCATTGCCACCCAGGTG
R:
TCTTCATCCTCCAGCAGCACT
Band lengths:
355-1098
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)