DreINT0038138 @ danRer10
Intron Retention
Gene
ENSDARG00000078904 | brd4
Description
bromodomain containing 4 [Source:ZFIN;Acc:ZDB-GENE-030131-267]
Coordinates
chr3:52951331-52951918:+
Coord C1 exon
chr3:52951331-52951441
Coord A exon
chr3:52951442-52951537
Coord C2 exon
chr3:52951538-52951918
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCATCTCTTCCCTATCTCAGGGA
3' ss Score
9.11
Exon sequences
Seq C1 exon
TTCCGGAGAAGTCCATGGAGGCGATAAGTGCTGTCAAGACAAAAGGCACTTCCTCCGATTCAGGCAGCAGCAGTGAGTCCAGCTCCTCAGAAAGTGAAGACTCTGAGACAG
Seq A exon
GTGAGCCCTGCAGCTCTGTCAAATCTAACTGCATTCACGATGATAAATGATCCGAGAAACTGCAATGCATAAAGAGTCATCTCTTCCCTATCTCAG
Seq C2 exon
GGATGGCTTCTAAGCCAAAGAAGAGAGGGAGAGGTGAAGGAAAGAAGGCTCATCACCAGACCACGGCTCCAGGCATGCCTCTGCCGCAGGTCCCCCTTCAACCCCAGACCCCTGCTCTGCAACCCAGCATTCAGCTGAAGCAGCAGCAGCCGCAGCATCCCTCTCCAGCTGCTTACATGCCACCTCCCGTCACGGCTCTGGAGCCCTCGCAGCTCCTGGAAAACCCCTTTGACCCTCTGGCTCACTTCATGCACCTTCCCCACCACGCAAACGACTCGTCCTCTCCTGCTCCACCTCACCTCAACGCTCACCCTCCAGGAGGCCCAGTGTCACCTGAGACGCATCCGTTCCTCAACCAGCACCCCATCCTTCCATCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078904:ENSDART00000115117:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCGGAGAAGTCCATGGAGG
R:
TGGTCTGGTGATGAGCCTTCT
Band lengths:
174-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]