RnoINT0026397 @ rn6
Intron Retention
Gene
ENSRNOG00000007681 | Brd3
Description
bromodomain containing 3 [Source:RGD Symbol;Acc:1308925]
Coordinates
chr3:6012152-6013131:-
Coord C1 exon
chr3:6012994-6013131
Coord A exon
chr3:6012300-6012993
Coord C2 exon
chr3:6012152-6012299
Length
694 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CCTGGGTTCTCTGTCTTCAGCCC
3' ss Score
8.01
Exon sequences
Seq C1 exon
GATTATCATAAAATAATAAAAAACCCAATGGACATGGGGACTATCAAGAAGAGACTAGAAAATAATTATTATTGGAGTGCCAGTGAGTGTATGCAGGACTTCAACACCATGTTTACAAACTGTTATATTTATAATAAG
Seq A exon
GTGAGACACGAGGTGTGGGGCCCCAAAGCTGCTTGAACGAGCAATCCCAGCCCTGAGAGCCTTAGGTCCATGGCAGACCGTGGTGCCTCGGGAGCCTAGGCCCTCTGCCATGGTTCTCAGGCTCACAGTAGGCAAACCCTGGCATTCTTGTGGTCAGCGAGTTCCTGTGCCATTTTAACGGATTGCTGGGGTTCAGTGGAAACTGGATAGCTTTCAGAGGACACTGTCACAGCCCACTGGCTCTGTCCTGGGGCCTAGGCCCCCAACCTTAGAAAGCCTAAAGGTGCAAAAGGAGGGGTCCAGCCTGCCGTCGAGAGGAGAGGCAGTCAAGTCGGCTGTGACCTGTGGGCAGCCACCAAGCTGCTACACAAAGCACTCTGATTTGGGGATTCTGCAGACTGGTCACCGTTGGACTGGATGGGGGTTTGCTCTTCTAGCTTCGTGAATACAGGACAGGTGTTAGTGCCCAGCTGTGGAAGCTTCTTTTCTCTGCTGGGTGAAGGCTGTTCTTAAACTTCGCATTCTGACATTTTCCACATTGAAAAACAATCTTGTCTACCATCACGACAAGGCTCTTAACAAAATTTAGTGCTTTCTTGAACTACAACCCACAATGGTGTTGTTTTTTTTTTTTTTTTTTTTTGCAAGTGCACAATTCTTTTCCCAGAGAGTGACCTGGGTTCTCTGTCTTCAG
Seq C2 exon
CCCACAGATGACATAGTGCTAATGGCCCAGGCCTTAGAGAAAATCTTTCTGCAGAAAGTGGCCCAGATGCCTCAGGAGGAAGTTGAACTATTGCCCCCTGCTCCAAAGGGCAAAGGCCGGAAGCCAGCTGCAGGAGCCCAGAATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007681:ENSRNOT00000065867:3
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=0.480
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=FE(51.7=100)
A:
NA
C2:
PF0043920=Bromodomain=PD(11.5=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAATGGACATGGGGACTATCA
R:
CTGCATTCTGGGCTCCTGC
Band lengths:
262-956
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]