RnoINT0026399 @ rn6
Intron Retention
Gene
ENSRNOG00000007681 | Brd3
Description
bromodomain containing 3 [Source:RGD Symbol;Acc:1308925]
Coordinates
chr3:6009209-6011520:-
Coord C1 exon
chr3:6011306-6011520
Coord A exon
chr3:6009581-6011305
Coord C2 exon
chr3:6009209-6009580
Length
1725 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGGTACTTTGTTGTCACAGAAA
3' ss Score
6.32
Exon sequences
Seq C1 exon
GTGCACAACAAATGGGAGCTGTGTCCTCGGTCTCCCCAGCACCCCCCTTCCAGAACATACCCCCCACCGTATCCCAGACACCCGTCATTGCCGCCACCCCTGTACCAACCATCACTGCAAACGTCACGTCAGTTCCAGTCCCCCCACCCGCCGCACCGCCTCCTCCTGCGACACCCATCGTCCCAGTGGTCCCTCCCACACCGCCTGTAGTCAAG
Seq A exon
GTGAGCTTTCCTGAGGCCTGCATGGCTATCTGGTGAGGAAGTCATTTGGGGGTCCAAGCCTCCTACAGTTTCTGAAGTGGGAGCAGCTCTGGGGCAGGCGGGAACTCTGCTGCCTTTCCAGGTACAGCTTTGGAAAGGTTTTCTGCACAGACAAGAAGACCGAGGCTCAGGGTGGAGGTCACATGGCTGGTGCTGGCCGAGCTGGACTTGCACCCCAGCTTCTTTGGCCTGGTAGCCCTGGTCTTTACAAGCCATTGGGGAAGGTAGAGAGGTGTGGGGTCAATAGTGAGAGCAGGACAAGTCGGATATCTCTGGTCATCTCTGGGGACGTGATGGCCAGGGAAGCACCCTGAACGTATAGGGGCCTGCACAGCTGTCCCTTGTTTGCTGGAGTCTCACAGTGGACACTGTCCTGCTCTGGCCAGGCCCTACTTGGGCATAGATGGAATGGGGGCTGTCTGTGAGGTGTGGGGTTGGCAAGGCCTATTGAGTCTCCAGCTTTGAGTAGGGCCCATAACAGACACTCATGTGTGTTATCTTCTTCAATTTAATCCTCACAGCGACCCTCTGGGGCAGGCAGTAGTCCCCCCTCTTACAGATGAGGAAACGGGCGCTCAGGGGTTAAATGGCTCTCCCAAGGTAAAATGCCACCTCCGTTGCCTTCCCTCCCCCTGTGGCCTTCACTGCCTGCACTTCCCGGTGGCGCCTGGCCAGGCTGTTTGCCACAGCGAGTCTGCCCTTCCACCCCAGGTCCTTTGCAGCTCGTGCTTGGTGCTTGCCATCCTGTAGGTGTCCATCAAATGTTTTTGGATGGCCAGCTTATGCCCCTGTCGGCCTGAGGGTGGCAGCTTGGCTGGGGAAGTAACTAGGGGGCTGTCCACTGCAGGTTCTACTGCTGTCCTCTGGCCTGTGAGTTTGTGGCCAAGCAGCTGGAAGGAACCCGCTGAGCATGTCTCAATATATACCGAGTCCTGGTCCTAATTCAGTGGTGATACCTATTGGTTGGGCTCTTCAGGCTGTGGCAGAGACCCCTTACCCTCTCAGGTCCCTTGGCAGAGACTATAATGTGTGTCTGCTATGAGCAGCCGGCTCCAGTTGTACCTGTGGAGGGCTGTGACACCTCCTGGGCCCTCTGCACTGCCTGTGCCTTCCAGATAGAGTCCTGGTCTCTCTATGCCTACAGCCCTTGGAGTCTCTTGGCCTCTAACTGCTGTGGCTGCTTCATGTCTCCTGGTCAGGCTGCCCCCACCCATCCAGCCTGGAATGCTCCTCCTGCCTCCCCTCCTTCTGCTCGATTTGTGTCTGTCCTTGAAGCACCTGCTCAGGGCCTGGTCTGGCACTTTGTTCTTGGTCTTTAAAGCAGGGAGTCCCTGTCTGGCACCAGTCTGTGGTGCTTCTTAGATGTTGGTGAGTTCCCTGTAGCACCTCATGCTGCTCAGATCAGCGGCCCTCTCACCCGCCGGGACGGCTGAATCCTCAGGGCTGACAGGGAGAGTCCGAGCCTCACCATGGCCAGCTGTGTGACCTTGGGCCCTAGGCCTGGCCCCTCTGAGCCTCGGTGTCTTCTGTACTGTGGGGACAGCTGAGAAGGAAACAAGACCCTGCATGTGGTTGCTAGCTTGGCACCTGGCAGGCAGTCTGCACTTCAGAGGTGTGGCAGCCGTGTGACACATCTCCCTGTGCGCTTCCTTGTTGCTGGAGTTCACTGGTACTTTGTTGTCACAG
Seq C2 exon
AAAAAGGGCGTGAAGCGGAAAGCAGACACAACCACACCCACAACGTCCGCCATCACTGCCAGCCGGAGTGAGTCTCCCCCGCCACTTTCAGAGCCCAAGCAAGCCAAGGTAGTAGCCCGAAGAGAGAGCGGGGGTCGCCCCATCAAACCTCCCAAGAAGGACCTGGAAGATGGTGAGGTCCCACAGCACGCGGGTAAAAAGGGAAAACTGTCCGAGCACCTGCGGCATTGTGACAGCATCCTCCGGGAGATGCTGTCCAAGAAGCACGCTGCCTATGCGTGGCCCTTTTACAAGCCAGTGGATGCCGAGGCACTGGAGCTGCATGACTACCATGACATAATCAAACACCCCATGGACCTTAGCACAGTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007681:ENSRNOT00000065867:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.983 A=NA C2=0.653
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043920=Bromodomain=PU(52.8=37.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCACAACAAATGGGAGCTGT
R:
CGCTCTCTCTTCGGGCTACTA
Band lengths:
344-2069
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]