DreINT0038108 @ danRer10
Intron Retention
Gene
ENSDARG00000022280 | brd2a
Description
bromodomain containing 2a [Source:ZFIN;Acc:ZDB-GENE-990415-248]
Coordinates
chr19:7242510-7244762:+
Coord C1 exon
chr19:7242510-7242638
Coord A exon
chr19:7242639-7244528
Coord C2 exon
chr19:7244529-7244762
Length
1890 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GTCTTCCCTCTGTAATTCAGGAC
3' ss Score
8.26
Exon sequences
Seq C1 exon
AGGAAGATGGATCATCGGGAGTACAGAGATGCACTGCAGTTTGCTGCTGACGTCAGGCTCATGTTCTCCAACTGTTACAAGTACAATCCTCCAGATCACGATGTGGTGGCCATGGCCCGGAGACTGCAG
Seq A exon
GTAGGGAGATTTGCATTTACAGCTGCATGATTGAGTTTTAAGTCTACTACACTCAAGATAGTTTATCATAGTTACACTCATTTGAGAAAGGCATTTCAATTTTTTCATTGTTAGCACAAATTAAGAAGGCTGGAATTATTCATATGATACATTTCTCTTAAGGTTCAATAACTATATAACGTGATAAAAAAGAAATAAATTCTGTAAATAATGTCTGTACAGATATAAACATAATGATAATGATAGGCTGTAGACATTTTTATTCAATATGGATCATTCTAGCAACACAAGCATGCCAACAGCCAGTTAGTTCATCTTGGTAATAAGCTTTCAGTACAACCCTTCTAAATAAAAACAAATGATTTAACTTAAAGTTCTGCAACAAATATATATTATAATGTACCTGTTTAAATAAGAAAAAAAAAAGTATTTTTCAGCAAGATGATTCATTATCCATTTTTTAACAAATGTATGCAGTTCTTTGAGTCATTTATCTAATAAAAATTTGTAATAGCATTTTTATTTCATTACATTTTAAAAGATTGGTTAAATTGTTTTAAAGCTTTATTCATCGTTTCATTTGATACAGTTCTGCTGATAAAGTTTTAATAAGAAACCAGAAAAACTGAATTGGAAAACACGAATAAATGGATTTGATGGGACCCTAAATTGAAAGGTATGCATGTAGAAACCATTTCCTCACGCATTAATTCTAAAATTATTATTGGAATAAATATAAATACTGGGGCGAAGCAGTGGAGCAGTAGGTAGTGCTGTCGCCTCACAGCAAGAAGGTCGCTGGTTCGAGCCTTGGCTCAGTTGGCGTTTCTGTGTGGAGTTTGTATGTTCTCCCTGCTTTCGCGTCTGTTTCTTCCGGGTGCTCCGGTTTCCCCCACAGTCCAAAGACTTGCGGTACAGGTGAATTGGGTTGGCTAAAATTGTCCGTAGTGTATGAGTGTGTGTGTGGATGTTTCCCGGAGATGGGTTGCAGCTGGAAGGGCATCCACTGCGTAAAAACTTGCTGGATAAGTTGATGGTTCATTCCACCACTAAGCCGACAAGAAAATGAATGAATATAAATACTGGATCATATGAGGAAAATGTATGATCATATTTTAACTAACTTTGACCAGATCTACAATCATATTTAAAAAAAAAAATCCTTTAAATCTTAAAATTGTAAACATATTTTAAATGTTAAAACACTGATATTGATTCCACAATTTGTTAACACTTTTTATTATATAAAAAAGGCAGATTTAGTAGCATTTGCTTCATTAAAACAGAATATCAAATGCAGGTCACTATGGAAAACTATGTTGTGCATTGCAAAAATAGTGCTCATTTGCTTCGTTGCCAGATTGAAAAGATTAATAAAACACACTGTGTAAAAAATACACTTTAAATGGACGAACAGCTTTTACTGTAAATGCAGAACTTATAAATGCTTCAAAATATATTAGAATAAATTCAGTAAACTAGCAATGGGGGCTACCATACTTAATTGACAAGGCAAGTTTACCTCTGTAGCACATGGTAATTCAAAGTGCTTTACATAAACAGGAATAGACAAAACATAAAATACAAATATAAGAACATAAAAAAAGAATAAAAATTATTTAAAACTGATTTAAATGTGTAAAAACGTTTTAAGGGCATGAAAAAGAAAAGAAAGACATAATGGTGCGATCTGTGGGACATAGCACAGTGCTCATCCAGTAAAGGCACAGCCAAACAGATGTCCTGACAAAGAAAGCTTGAAAAAGTTGCAACTAAAATCTGATTATTCAGGCAGCTGTAACTGCACTTCTATTTACACACATTTCAAACTGCTTGCAAAAAAAATCTATGCAGACCGAACATTAAAAATGTCTTCCCTCTGTAATTCAG
Seq C2 exon
GACGTGTTCGAGTTCCGCTTCGCCAAGATGCCTGACGAGCCCCTGGAGTCTCTCCCACCTGCATCCCTGGGCGGCGGTCTAGGCGGTGACTCCTCCTCTTCCTCCTCCTCTTCCTCCTCGTCCTCAGAGAGTGACGTGAGCAGCGAGAGTGAGAGCGAGAGCAGCCCGAGCTCTGACAGTGAGGAGGAGAGAGCGCATCGCCTGGCCCAGCTTCAGGAACAGGTGTGTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022280:ENSDART00000035967:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.806
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PD(44.9=93.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGGAGTACAGAGATGCACT
R:
CACACCTGTTCCTGAAGCTGG
Band lengths:
342-2232
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]