DreINT0038152 @ danRer10
Intron Retention
Gene
ENSDARG00000078904 | brd4
Description
bromodomain containing 4 [Source:ZFIN;Acc:ZDB-GENE-030131-267]
Coordinates
chr3:52944678-52947074:+
Coord C1 exon
chr3:52944678-52944806
Coord A exon
chr3:52944807-52946852
Coord C2 exon
chr3:52946853-52947074
Length
2046 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
AAAGGTTTTCTTTTTTGTAGGAT
3' ss Score
8.08
Exon sequences
Seq C1 exon
GATAAGTTGGAAACCAGACAGTACAGAGAAGCTCAGGAGTTTGCAGCAGATGTACGGTTAATGTTCTCCAACTGCTACAAGTACAACCCTCCAGACCATGAAGTGGTGGCTATGGCACGCAAACTACAG
Seq A exon
GTACGTCTACCTTGCAGTGTTGGGCAAACTACTTGAAAAATGTAGAGAGCTGATCTAGCAAACTAAGCTACAAACAACTTTGCAAAAGTAGCTAAGCTACATCTAAGCTATTTTTGCAGTTTTCATTTTTAAATTGAAGCAACTTAAATTCAAGTCAATCATATCTCATATATGCCAGTTAAATGTGACCCAATGCCGATTTTTGTAGTAAATAACAGTAAACAACAACAACAACAACAGAGGAAACACGGAGGAGGAAAGTGGTCAGTGGTCGATGGCAGAAGTAACATGCCTTCTTGGTTATGTAATTCAGTCATTCCGAGTTCATAGTATTTATGAACTCATAGTTTGTGATGACAAATTCTTCCATCGCGGCTAGTGTGGCGCAGATGCTAGAACCCGCCTTTACGCATGCGCAACGTTGTAAATTATATGGCAAGTGTAAACACATGAATAGGATATGGGTCACAATTAAAACAACGTCTAGATGGACCAGCAAACAAATCAGATATAGGCAACAAATCGCAATTAGACATCAAGACCTGACAGTGACTTAAGTGATCAATAAAACTGTCAATGAAACATATGAGGAATAATTGTTCAATTCAGTTATTTTCTCAAATAATAATATGTTGCACTAAACAAAAACAAATTGTAGTATGAAACAGCAAGAACAAACAATCCAATAAAACCAGGTGTTACTCATTAAAAATTCTACAGTAATTTATAGTAAAGTGAAAAATTTAGGAATAAGCATTATAGTGTATATATATATATTATTTATTTATTTATTTGTTTATTTATTTATTTATTTATTTATATCTATACTTATTAATAATAAGAAAATTGTCAATATTTGCAAAAATAAAACAGAAAAAACAGACAAAATAAACAATACACATAAATATTAGGATAGAGGTCTGCGCTGGACTGTTTTCATTGTCCCGCTCCCGCAAGGTTTTATTTCGCACCCGATTGCTCCTGCTGTATATTTAGTCTTTGTTCACCCACTGCTCGCATAGAAAAAACCCTTTTGTTCCCGCTGAATTTAGATCTGGTTTACAAAATCTCACATTTAAATTGGGTACTACCAAAAGGGAGAGATAACAGATAAAACTGTATGCTGTGCAAGGATTGTAGGCTAAATGTCAGTTTTGTTTGCCACTTTGTGATGAGACATGAGTGCCGCCTTAAACCTGAGGTTTAAGTCTATGACTGCCAAAGGGTAAAACTTTGAGGTATTATCATTACGCAAAGGGTCATTTTTTTTCCATTTGCATCTATGACGCATGAAAAAGTCTCCCATACATCAGACTTGCCTGATGTGGTTTTCCTAACAGTAAACTGACCGTTTTCTGATGCAAGCTCAGTGTGCTCTGCCATGTTAAACGCCACTCTAAGGACCGTAATACAGATGATGCGCATACAAACTGCGTGAATAAAAAAGCACGTGCAGAAAGCACTGGTCATGTGTTTATCTTTTGTAACAGTCATGTACCAGTGCTGTACCAGTGCTCAACACGAATGAGGAAATCACAGATATGCTGTTCCGAAATAAAGTCAAGACTCTGGAATGCTGTATTGTTAGACCGCTCGCTCCCTTTCAAATTACACCAGTAATTACTGTTGATTTAAATTACACCAGAGTTACTGACCGATATGGCATTTTATTCAGAAATGTTGGAAATGCAGACCTCTGTTTCTGGGATAAAATGTTTTGTGTTATAAAACTTGACATTTTTAATAAGTAACATTAAAAAAAACTTACTTAAAGTGGGTCAGTAGGAGTATTTAAAGCTTTTACGTAAAAGTTTGAATTTGTTAATCTAATCTGGTTTGTTATGGCGATCTAATGCTGCAATCAACATGCGTGTTTTTTTCCATTGACTGTTTGTGTGAATGGACATTTTATGATGCAAAAAAAAAGCACTTTCTTAATTTTCCTTTATGTTATTAGAATATAACCCCAAATATGCATTGCTGCATTCTGAAAGCAGGACGAAAAGCGTCTTACACTAGAGAAATAAAAGGTTTTCTTTTTTGTAG
Seq C2 exon
GATGTGTTTGAGATGCGTTTTGCTAAAATGCCTGATGAACCAGAAGAAATGCTGGCCCCTGCTCCTGCGCCAGTGCTCCATCCGGCACCTGTAAAGACACAGCCGGTCATGGCCACTGCCTCATCCTCGGACACCTCCAGCGATTCGTCATCGGAATCCGAGTCCTCCACGGACGATTCTGAAGAGGAAAGAGCCCAGAGGCTAGCAGAGCTTCAGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078904:ENSDART00000115117:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.233 A=NA C2=0.905
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PD(44.9=93.0)
A:
NA
C2:
PF139251=Katanin_con80=PU(60.3=51.4)
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:
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]