DreINT0038121 @ danRer10
Intron Retention
Gene
ENSDARG00000006527 | brd3a
Description
bromodomain containing 3a [Source:ZFIN;Acc:ZDB-GENE-030131-6141]
Coordinates
chr21:18234767-18235352:-
Coord C1 exon
chr21:18234981-18235352
Coord A exon
chr21:18234896-18234980
Coord C2 exon
chr21:18234767-18234895
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
ATTTTCTTGCCTGCTTACAGAAA
3' ss Score
9.06
Exon sequences
Seq C1 exon
AAGAAAGGGGTAAAGAGGAAAGCAGACACAACCACCCCTACTACCTCTGCTATCACCGCGAGCAGAAGCCAATCACCCACCCCAATTTTAGAAGGCAAGCAGAGCAAGGTGGCAGCCCGGCGAGAGAGCACCGGTCGCCCAATTAAACCACCTAAAAAGGATTTTGAGGATGGTGAACTAGGCGTGCATGGTGGCAAAAAGGGCAGACTTTCAGAACAGCTTAAGTACTGCGATGTCATCCTTAAAGAAATGCTGTCAAAAAAACATGCTGCGTACGCTTGGCCATTTTACAAACCTGTTGATGCAGAGGCTCTCGAGCTGCATGACTACCATGATATAATCAAACACCCCATGGACTTAAGCACAGTAAAA
Seq A exon
GTATGTTGAGTTTGGACACTTAGCTGTTATAATGCCTTCAGTTTTACAAGGTAATATTCATGTTTATTTTCTTGCCTGCTTACAG
Seq C2 exon
AAAAAAATGGATAGTCGAGAGTACCAGGATGCTCAGACTTTTGCTGCAGATGTGCGATTAATGTTCTCAAATTGTTACAAGTACAACCCACCTGATCATGAGGTGGTTGCTATGGCCAGAAAACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006527:ENSDART00000135239:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.547 A=NA C2=0.093
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PU(52.8=38.2)
A:
NA
C2:
PF0043920=Bromodomain=PD(44.9=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCGAGCTGCATGACTACCA
R:
TTTCTGGCCATAGCAACCACC
Band lengths:
183-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]