DreINT0038105 @ danRer10
Intron Retention
Gene
ENSDARG00000022280 | brd2a
Description
bromodomain containing 2a [Source:ZFIN;Acc:ZDB-GENE-990415-248]
Coordinates
chr19:7239496-7240323:+
Coord C1 exon
chr19:7239496-7239640
Coord A exon
chr19:7239641-7240120
Coord C2 exon
chr19:7240121-7240323
Length
480 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGG
5' ss Score
4.37
3' ss Seq
ATGTTTTGTCTCTGTTTTAGTCT
3' ss Score
10.27
Exon sequences
Seq C1 exon
CCCACAGATGATATCGTCCTGATGGCTCAGTCTCTAGAGAAGGCTTTCCTGCAGAAGGTTGCACAGATGCCTGAAGTGGAGGAAGAGATTCCTGCACCTGTCCCCAGAGGAAAACAAAGCAAACCAAAAAAAGGCCAAAAATTAT
Seq A exon
GTAAGGATGTGGTGAAATTACCAGATTATATTCTTTCTTTACATTCAGTTATATTCGATATTAATTTAAGGTTTCTATAAATTTTCCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATATCTATCTATCTATCTATCTATCTGTAGTTCTATCTGTAGTTCTATCTGTAGTTCTATCTATATCTATATTGCCTAATTCTATTTATGTTGTTCTATCTATATCTATCTTGCCTAATTCTATCTATCTGTCTATCTATATAGCCTATTTCTATCTATCTGTCTCTATCTGTCTGTCTATCTATCTTTTTAATAGTGTTAAACATTCATTGTGTGTTTTTAAGAAGATTCATATGAAATTGGGTCAAATGGTGCTGTTTGTTTATGGATGTTTGCTTTTATTTTTATTTTCATGTTTTGTCTCTGTTTTAG
Seq C2 exon
TCTCAGGTGGGATCACGACAGCTCATCAGGTTCCTGCCATATCTTCTCTCTCTCAGCTGGCTTACTCTCCTCCAACTCCAGACACCCCAGACTCAGTGCTTTCTACGCCACCACAGACGCTTATAACCAAGAACTTTCCTCCTCCTCCGTTACACAGCACGCCTGCGCTTTTGGGCCTCCCGCCTACACAACCCACTGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022280:ENSDART00000035967:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.490 A=NA C2=0.824
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PD(11.6=20.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCACAGATGATATCGTCCTGA
R:
TTAGCAGTGGGTTGTGTAGGC
Band lengths:
347-827
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]