DreINT0038100 @ danRer10
Intron Retention
Gene
ENSDARG00000022280 | brd2a
Description
bromodomain containing 2a [Source:ZFIN;Acc:ZDB-GENE-990415-248]
Coordinates
chr19:7235575-7238341:+
Coord C1 exon
chr19:7235575-7235715
Coord A exon
chr19:7235716-7238046
Coord C2 exon
chr19:7238047-7238341
Length
2331 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CATGTGCCCGTTCTCCACAGCTC
3' ss Score
10.8
Exon sequences
Seq C1 exon
ATTTCATTGTAGCTCTGAGCTGGAGGATAGAGGAAGTCAGAAAAACAAGGCCGCGAAACTCGGATATTCGAGCGAAACCGGTTTATAAACAGAATCCGGATCCATCCCGATGGAAACGGCTCTTAGCCCGCCCTTTGACAG
Seq A exon
GTACCAGTTGGACTAAATGACATTACACTTGTTCTGTGAAGGAAAAATGTTGTTGGAGTATTGTCCTAATTCGGCATCTTTTGGAATTATTTTAAATTAATCACTTGTGACCTGTCGCAATAGCATCAGATGAAATGCCGGAATATTACACCTCCATTGACTTTTATTTTCAGGTGTCTGTGTTCTTGAGGGGACTAAATGTAAACAGCGTCGGTTTGGGATAGTCTTGAAGTTTTAAAGTGTGATTTTTAACGAGCAGCTGCCGCCTGCCGGTGTTTACTGCGCAGGCGCGTTTTCGCTCACTGACACGGCTAGTGGATAAAATGACGGCTATTTTGTTGATGTTCAAACTGACAAGTTAGACAAATACAAAGCCAGTTATATCTCTCAGATAGTTCGAACTGTAGTAACGTCTTGTCTGTCGTAAAACACGCCGGGATAGTGTGCGAAAGAGAAATTAGCATGCTTTGCTAAAGCTATCAGCGACCAGTCTCTTATACAGTCTCAGCAGTTGCTGGGTCTTTATTAAATACGAGTTGATTTAATATTTGTACAATTTTCGTTATCCGAGTGAAGGTTATGATACAATGCCTCCAATATTTCTTCCTCGACTGTTTTAGTTACTGTATTGATGTGAAGTTGGAACTTGGAATGTAAAATAGGTTACCGTTACCTTTAACGTTAGTCATTCTGAAACCCATGTTGAGTTGAGCTTCCGCCTCATACCACGTGGACTTTTGTCAACATTTAACGCGCGGAAGGCCGCAGCTTCGTGCTCGAGCCTGTAGATCGCATCTCGACTGCTTTTGTTTTCGACTGTCAATGATTTGTGAAATCTAATGGCACAACGCTGAATAATAATTCGTGTAATTGTTTCGCTTTTGGTTGCTTAGCAACGCGAGTCGTTAAACGAGCCGCATGAAGCCTGCCATCTGCCCCCTCCCAACCATCATAAACTAGAGACAGAGTAAATTAGACGTGTTCAATGTTTCATTTATTCAAAGATTGTTTGTAAACCAACATTTTTCTTGACTGAAAATAAAACGTTTTCTATGTGAACTGATTGTGATTTTGTATCATTTAGTAACTTTTTAATTTAAAAGAAATTGCATGTTTTAACTTTATTAAAAATGTGTGATGGATATGTGCAACTACAAAAGTGCAACAGCCTGTCTGCATTCAGTATTCTTCAGTTTGTTCTGTGTTCATCAGTCCTTACTGGGGCAGGTATGCAACTGTCTGGAAGGCATGAGAGCAGTAATATATGCAGCAAGAGTGAACATCTACCTCAAGTGTTGTAGTTAATTTTTACATTTCTAAACGTTATGTTTGCAATACATTTACAATTATTGCATCAGTATTGCTATCAGAGCAGTCCCAGTGAACACTGAATCCCAAAAGGATGCACATGAAAGATTGTGATGTGATATGAAGTTAAACAGTTAGGCTTCAGAAGGTAAGTTTACAGAGGAAAGAAGATTCTGAACGCTGGGATGTTGGGAAAAAAGCCAATACACTATGCTTTTGTTACTAAAAGGTATTGTCATTTTACATTAACAGTAAAATGTAGAAAGGGCATTTTAACTTCCTTTTTGATGCATTACTGAATATGTGAACTAACTTAATTGCAATAGCTAATTTCCTCTGGTTTTAAAACTAAAGGTCATCATTTTAATTTTAAATCTATATGCTTATACGAGATGTTTAATGCAAAATCAAAAGTTTGGGTAGATGTAAGACGAGGGTATTTACTGTCTTTAAAGGAACAAAGTAATGTTATATATATATATATATATATATATCTATATCAATATCATAAAATAAAACTCTTGTTTTGGTGGAATTGTTAGTGAAACTAAGGCTTCAGGGAATTGATTTGTCATTCATACTGTTTGTTTTAAAAGCCCACAGTCATTGGATAATGCCTCAGATAAACATACAAACACAACCCGATCTGGGTAATTAGGTCTATTGAAGGTCACGCCCCCAGTTTCCAGCTGAACTGTGGCGTATTGATCTGGAATGTTTCTCAGCAGAACTCATCCATGCCTGGACAGATAAACCGCTGTAGGGCCAGCTCACTCTTCATGGTTGTTGCTTGTTATAAGACAAACATGATTAGTCATAACCTTTGAGATCTATAAAGAGCTGCCGATCAGAGATGACTCACCAAGTTTCACATCATTAAATCATACAGCTGCTCTATTTATTGTTCATAAGTTCTATATTTATGGGTATACTTGGTGTCGGTATGAAACAATATTCCAATATGAATTATATACTCTTGGGTTTTCTCCGCGTGCCTCATCTCCATGTGCCCGTTCTCCACAG
Seq C2 exon
CTCCCTGGGCGGGTGCGACGGCATGCAGGGGCTCACCATGATGGAGCAGACCATCTCTGGACCCGGCAAACGCATCCGCAAGCCGTCGCTGCTGTACGAAGGGTTTGAGGGACCCGCTCTGCCACACATAGCTCAATCTGGACCCCCTCAGCCCGCTGTGCGGGACCCCTCAAGGCAGGGCCGAATGACCAATCAGCTGCAGTTCCTCCAGAAGGCTTTAGTGAAGACGCTGTGGAGGCATCACTTCGCCTGGCCTTTCCACGAGCCTGTAGATGCTGCCAAACTTAACCTTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022280:ENSDART00000035967:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.818 A=NA C2=0.386
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043920=Bromodomain=PU(32.6=28.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]