RnoINT0026396 @ rn6
Intron Retention
Gene
ENSRNOG00000007681 | Brd3
Description
bromodomain containing 3 [Source:RGD Symbol;Acc:1308925]
Coordinates
chr3:6012994-6014198:-
Coord C1 exon
chr3:6013891-6014198
Coord A exon
chr3:6013132-6013890
Coord C2 exon
chr3:6012994-6013131
Length
759 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TCTGAACATCTCTTTCCTAGGAT
3' ss Score
7.93
Exon sequences
Seq C1 exon
GTGCCTGATTGGGCCCAGAAATGGGATGCCAAGCCTTCCCGAGGAGCGCCTCTTTGAGCTGCTGCTGTGACAGCAAGTGACTAAGCTGCCAGAGGATGTCCACTACTACAGCGGCTGCCCCCACGGGGATCCCGGCAGTCCCGGGCCCCGTGAACCCTCCCCCACCTGAGGTCTCCAACCCCAGCAAGCCCGGCCGAAAGACTAACCAGCTGCAGTACATGCAGAACGTAGTGGTGAAGACACTCTGGAAACATCAGTTTGCCTGGCCTTTCTACCAGCCTGTGGATGCAATCAAGCTGAACCTGCCT
Seq A exon
GTGAGTGACCCTGCGCTCACTCTTGGAAATCCCGTCCAAAGGTGGTGTCTGAGAGCTAGCCAGTGGTGCCTGTGCCTCAGGAGCCAGCGGTCTGGCAAGATGGTTGCCCCTAGTAAAAGAAATGGGAAGAACCTATAACCTCCCTGGTGAAAGAATACAAGGAGGGTCTAGAGCAGTGGCTCTCAGTGACCCTTTTTGGGTGGGTGAATGACCGCTTTACAGGGGTTGCCAGAAAACACAAGATATTCACACTGTAGTTCGGGGTCAGCACAATATGAGTCACTCAGTGTATTAAAGGGTCACAGCACTAAGAAGATTGAGAACCACTGGGTTAGAGGGTGTTGGGACCTGGGGCAGTGGGCCACTCAAGTCTTCATTTCCTGCGCTAGGGTCTCTGCCTCTGTCCTCTTGTCGTGCACACTCAGATACAAGTGGCCATACCCAAACAGTTTGTAACGAGAAGCCCTGCACAGGCACCTTACACCTTTGCTCCTGTGCACGCCTTGGTCCCTGTAGGCTTAGAATCAGGGAGTTTGGCTCTCTCTGCGTGTGAACCAGCTCGGCCTCTGCCTAAGCTGGAGAAACCTGTGGGGACAGGTTGGCAAGAGTTTGCCAAAGCGTCTCCTCAGACCACACGGCCCACCTGCTCTCCCTCAGGCCCCCGGGACCGAGCTGACATGGGAGGGCTCTGCTGTTCTTGGGGAAGTGGGAGAATAAGGTTGGCTATATGAATAACATTTCTGAACATCTCTTTCCTAG
Seq C2 exon
GATTATCATAAAATAATAAAAAACCCAATGGACATGGGGACTATCAAGAAGAGACTAGAAAATAATTATTATTGGAGTGCCAGTGAGTGTATGCAGGACTTCAACACCATGTTTACAAACTGTTATATTTATAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007681:ENSRNOT00000065867:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.493 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PU(33.3=40.8)
A:
NA
C2:
PF0043920=Bromodomain=FE(51.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGATTGGGCCCAGAAATGG
R:
AGTCCCCATGTCCATTGGGTT
Band lengths:
347-1106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]