DreINT0038123 @ danRer10
Intron Retention
Gene
ENSDARG00000006527 | brd3a
Description
bromodomain containing 3a [Source:ZFIN;Acc:ZDB-GENE-030131-6141]
Coordinates
chr21:18234026-18234660:-
Coord C1 exon
chr21:18234454-18234660
Coord A exon
chr21:18234095-18234453
Coord C2 exon
chr21:18234026-18234094
Length
359 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TGCCATTTTTTTTTTACCAGTGT
3' ss Score
8.1
Exon sequences
Seq C1 exon
GATGTGTTTGAAATGCGATTTGCAAAGATGCCTGATGAGCCAGTGGAGGTTCCTGGGGCAGGTGGTGTAGGTGGGGCCGGTGTGGTCAGTAAGAGTACTGTCAGCAGTGAGAGCAGTGGCGACTCCTCCACCTCTGACAGCTCCGACTCTGAGGAGGAGAGGGCCACCCGGCTTGCCGAGCTGCAGGAACAGGTGGGTGCGGAACAG
Seq A exon
GTGGGTTTCAAAACAAGGACCAAGTTCCTTTATCCTCTCCAGGCTCAGAGATGTTCTCAGGCCACATGAAATGTCTCAACCTTTTTACACCTCACGCACATGCCATTCTTAATCAATGCTTATTCTCTAAAAAACCTGGAAGGCTTCCACTTTTACAGCAGCACCTTTTTGCTTTCAACTTGTGCACTTGTACAAAGAGCTGTTTTTTTAGCCCTCTACCGCGACCAGCTGCATATATTGGTTTGCATTTTAATCTCAAAATGCCTGGATGTAGATGTAGTATCATTTATGTTGTTTTGTTTCTGTCTTATTGGAGCTCTATATCACATTTTCTTCCCTTGCCATTTTTTTTTTACCAG
Seq C2 exon
TGTATCTCTTTGGAGCACCCCATTGGTAGCAGAAAGGGGATAAAAAACGGGTGCACCAAGAATAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006527:ENSDART00000135239:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.768 A=NA C2=0.870
Domain overlap (PFAM):
C1:
NO
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:
GATGTGTTTGAAATGCGATTTGC
R:
TGATTATTCTTGGTGCACCCGT
Band lengths:
275-634
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]