RnoINT0026415 @ rn6
Intron Retention
Gene
ENSRNOG00000006770 | Brd4
Description
bromodomain containing 4 [Source:RGD Symbol;Acc:1307282]
Coordinates
chr7:14250995-14252627:-
Coord C1 exon
chr7:14252490-14252627
Coord A exon
chr7:14251131-14252489
Coord C2 exon
chr7:14250995-14251130
Length
1359 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CCACCTGTTTCCTCATCCAGCCT
3' ss Score
7.45
Exon sequences
Seq C1 exon
GATTACTATAAGATTATTAAAACACCCATGGATATGGGAACAATAAAGAAGCGCTTGGAAAACAACTATTACTGGAATGCTCAGGAATGTATCCAGGACTTCAACACTATGTTTACAAATTGTTACATCTATAACAAG
Seq A exon
GTGAGATGTTGGGGGCAGAGGTCCAGTTTCCTTGCTTGGGAAGGAGAGGAAGTAAAAATAGGGATACTTGTCAGGAGCCTTAAGGGCAGGGCTGCTGGGATAGTTGGGCTGTAAGTATGACAGCGAGAGACTCCAAGAAGTAGGATAACGGGACCTGTAGTTGTGCATAGGACTGGGTGTTTCTTTTATGGGGAGGAGGGCATTACCCTTGTTAGCCTGAAGCATCTGCCTGTAGTACCCTGGGGTTTTTATTTTAGTTCTTGAGCATGTCTAGTAGAGAACGTATGAGGTCAGATGACACCAGATGGTCCATTGGGATGGTGTACATTTTCAGGTAAAAGAGCCTGCACAACTTAGAGTTTTGCAGAAGTGTGCTCAGGCACAAACCTTGATGTGAGAGGGCACAGTGGGGCTAGCTGCAGACCCCAGCTGTTCTGTGGGTCACAGTCTCCTGGAACTGTGGACATGGCCATAAAATCCAGTGTCCCCCTGGTCTTACATATAGACCCATGGGTCACTTCCTAACCCCGTAGCCAAACCTTTCGGCTCGGCTGTGCCATGAAGCCAGATCATTTGTTTACAGTTCAGACCACAGATGTGATTAAAACCAACCCTTTCAAATAGAACGACTCTGGAGGGAGACACTATACAGAACTCAGCTTTTGACCTCTGCTCGTGTAGTGGGTAAAATTGCCCAGAAGAGATGGGTAGGTGAGTTTCTTGAAGTTTACTGTGTTTTGTAAAGCCTTAGTTCTCACCACTTAGGTGGAAAGCAAAATGTACAGACTAGGCCCTCAGTTTAGAGCTGAACGGGGACAGCATGTTCTGGATGTGGTGACAGAGTGGGGATCCATAAGACAATGTGATAAGGGCTTTGTCCAAACCTCACCGAGTTGCCATTGGGGTACATTAGGGAGCACTGTTGGAACCCTAAAAAGTATTCATCACCCAAAACAAAAAAAAAAAGCTGTGTAATTTGAGTATTTCTAGTGAATTCATTTGAGTTGTATCTGAAAAAATCCCAAAGTAAAGGAGGGCCTCCCATTAGGAAATTGACTGAGCTGGTAGGTACATAAGGCACAAGGATGGTTTCTTGAAGCTTAAAACTGAAGGGAGATTCAGGTGGATAGGTCTTGTTAGGAATACCACGTGGCATAACCATTATGGCCCCTGGAGTCCAGTATTGTTAGGATTACCTTACCTAGTAGCATAATGATTGTGGCCCCTGGAGTCCATGTCATGGAAGGAGCCTGGGTGCAATGCTCCATGTGTTGGGGCATGCGGGTGGCCTTGGTGTCCTATCCACAAAGATGGGAAGAAGGGGCCTTCCAGCTCTACCCCACCTGTTTCCTCATCCAG
Seq C2 exon
CCTGGAGATGACATCGTCTTAATGGCAGAAGCTCTGGAGAAGCTCTTCTTGCAGAAAATCAATGAACTGCCTACAGAAGAAACCGAGATCATGATAGTCCAGGCAAAGGGACGAGGACGAGGGAGGAAAGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006770:ENSRNOT00000008963:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.413
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=FE(52.3=100)
A:
NA
C2:
PF0043920=Bromodomain=PD(11.6=21.7)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAACAATAAAGAAGCGCTTGG
R:
TGTTTCTTTCCTCCCTCGTCCT
Band lengths:
238-1597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]