DreINT0038107 @ danRer10
Intron Retention
Gene
ENSDARG00000022280 | brd2a
Description
bromodomain containing 2a [Source:ZFIN;Acc:ZDB-GENE-990415-248]
Coordinates
chr19:7241941-7242638:+
Coord C1 exon
chr19:7241941-7242429
Coord A exon
chr19:7242430-7242509
Coord C2 exon
chr19:7242510-7242638
Length
80 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
TTTGTTTGTCAATCTTGCAGAGG
3' ss Score
7.75
Exon sequences
Seq C1 exon
AAAAAAGGCGTTAAACGCAAGGCAGACACGACCACCCCCACCACCACAGTCATGCCCCTCACTTTGGGTGTAGGAGGCATGGGGATGGGTATGGGCATGGGAATGAGTATGGGAATGGGCATGGGGATGGGTCTGGGTGGAGACTCCCCACTCACCCTCTCCAATATGGGCATGGATTCCAAACAGAGCCTGTCCCTCAGCCTGGGCATGTCTCTGGAGGACAAAGTTCCAGCCAGGCGAGGTGGCAGTGGCCGGCCCATCAAACCACCTCGGAAAGACTTGCCCGACTCGCAGAACCAACATCAGCCAGTGCGGCGAGGAAAGCTGAGCCAGCAGCTCCGATACTGCAGCACCATCCTCAAAGAGCTGCTGTCCAAGAAGCATACGGCCTACGCCTGGCCTTTCTACAAGCCAGTGGACGTGTCTTCACTGGGACTCCACGATTATTACGATATCATCATGTATCCCATGGATCTGAGCACAATTAAG
Seq A exon
GTGTGTGTGTAAAGAAGTCTGAGTGTGTTGTGATGTTGTAAAATGAATGAGATGTTCATGTTTGTTTGTCAATCTTGCAG
Seq C2 exon
AGGAAGATGGATCATCGGGAGTACAGAGATGCACTGCAGTTTGCTGCTGACGTCAGGCTCATGTTCTCCAACTGTTACAAGTACAATCCTCCAGATCACGATGTGGTGGCCATGGCCCGGAGACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022280:ENSDART00000035967:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.620 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PU(52.8=28.8)
A:
NA
C2:
PF0043920=Bromodomain=PD(44.9=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCAGCACCATCCTCAAAG
R:
GCAGTGCATCTCTGTACTCCC
Band lengths:
183-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]