RnoINT0026402 @ rn6
Intron Retention
Gene
ENSRNOG00000007681 | Brd3
Description
bromodomain containing 3 [Source:RGD Symbol;Acc:1308925]
Coordinates
chr3:6002537-6004232:-
Coord C1 exon
chr3:6004041-6004232
Coord A exon
chr3:6002773-6004040
Coord C2 exon
chr3:6002537-6002772
Length
1268 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AGCTGCTTGCTTTTTCCTAGCTG
3' ss Score
5.67
Exon sequences
Seq C1 exon
GATGTGTTTGAGATGAGGTTTGCCAAGATGCCCGATGAGCCCATGGAGGTGCCTGCGCTGCCTGCTCCCACAGCCCCCATCGTGAGCAAAGGGGCTGAGAGCAGCCGTAGTAGCGAGGAGAGCTCTTCGGACTCAGGCAGCTCAGACTCTGAAGAGGAGCGAGCCACTCGGCTGGCAGAGCTGCAGGAGCAG
Seq A exon
GTGAGGACAACCAGCTCTGTGCTGCTTCCCACTGAGCATGCCTCACCAAGCCTAGCGGACCGAGTTGGCCCCTTGCCAGCTGTCCTTTTCTCCTCCGTGACCTACTGTGGCCCTTGTCTGTGCTAGTGGAGCAGTCTCTGGGGTTGCTCACAGAACCTTCCTGGGTCTGAGGAGGCTGGAGCCTGACACCCAAGAGCTCATAGGTGGCTGGAAGCACTTGAAGGCCTGAGTCCTTCTTGGGTTGGGGGTGGGGAGTGGGGGGGCGGTCTTCAGAAAGGCTGGGAATCTCACACAGGCTACAGTAATGCCTTTTAAGAAGCTCCAGTGGGTGTGCTCCAGGCTTCAAGAACCCCTCAGAGCCTGGCTCATGTCTGTGCCTCCCATACCCTCCTCTGCCTCAGTCTCCCTGCTGTGCAGAATGAGGTGACCTGACTGTTCTGTGGAACAGTTCAACTACATGAATTACTTTCCCGGGTGTGGCAGCCAGCCCTGGGAAGTCAGTGCACAGCCACCAAGACAGTAGTGTGCGTGAGCAGGTGGCACCAGGGGGAGGCAGGGCTAGGAGAATAGTGTTAGCAGATGGAGCTGCCTGTCAGATTCTGGGATAATGATGTCATGGAAGAGGGGATTGGCCATTAGGTGTGTGGCCCTTGGGCCGATGAGTCCTTCCCACTGCATGGTTCCTTCCTCTGTTGGCTATGTAGCTTTTCCTGAGATATACCCAGGAGCCACGCAGGCCACCTGCTTACCTGTACACGGTGGGTCTCAGCCCCTCCCCGAGACATGAGTGCAGCACTCTGTCTTGCTGGCTGGCGGCTGGTGGGGCCCCAGGAGGATGAGCCGCTGTCATTGTCTCACTTTGATCCCGCAGACTGGCTGCGGAGCCTTCCAGGATCAGCTGTTGAATGTCTCCTCTGTGCAGGTGCTTACACTAGTCCTCTCATCTGAAAGATAAGCATTAATGATGAAAGTATTAGCCGCCGTTACCAAGGTCCTCCTGTGTCACCTGCCCCAAGCCCAGCCTATGAGCAGCCACCCTGGGAGGTGGGTCCCTGTCCCCATAGGTGAGGGAACAGGTTCAGAAGGTGACATGACTCCCCAGCAGGCACACAGAGGGGCAGAGTGGGCTGGGACGTGCTTCCCTGCATCTCTCTGGCTTCCAGAGGCAGAGCGGGGCCCAGATGCCCCGGCTTATCCCGTGTAGTTGAGGCAGCCTCAGGGGCACCAAACCCCCAAGGCGACCCGCTTAGCTGCTTGCTTTTTCCTAG
Seq C2 exon
CTGAAAGCCGTGCACGAACAGCTGGCCGCCTTGTCTCAGGCCCCAGTGAACAAACCAAAGAAGAAGAAGGAGAAGAAGGAAAAGGAGAAGAAGAAGAAAGACAAGGAGAAGGAGAAGGAGAAGCACAAGGCCAAGTCCGAGGAGGAGAAGAAGGCCAAGGCAGCCCCAGCAGCCAAGCAGGCCCAGCAGAAGAAGGCTCCCACCAAGAAGGCCAATAGCACAACCACAGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007681:ENSRNOT00000065867:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.833 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGGTTTGCCAAGATGCCC
R:
TGCCTTGGCCTTCTTCTCCTC
Band lengths:
342-1610
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]