DreINT0038124 @ danRer10
Intron Retention
Gene
ENSDARG00000006527 | brd3a
Description
bromodomain containing 3a [Source:ZFIN;Acc:ZDB-GENE-030131-6141]
Coordinates
chr21:18232943-18234094:-
Coord C1 exon
chr21:18234026-18234094
Coord A exon
chr21:18233161-18234025
Coord C2 exon
chr21:18232943-18233160
Length
865 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATT
5' ss Score
5.95
3' ss Seq
CCCTTCTTGGCTCTCCCCAGCTG
3' ss Score
9
Exon sequences
Seq C1 exon
TGTATCTCTTTGGAGCACCCCATTGGTAGCAGAAAGGGGATAAAAAACGGGTGCACCAAGAATAATCAG
Seq A exon
GTGATTTCACATTTCCCTGTCCCTGCCTATGAACATTGTGTATTAGCTGTAGTTGCTTTCATTCTTTGTATTAGATGGTCAGGAGCATGATATGGATAGTGAGATCAGCGGTAGAGGGTTAAAAGCAGCAATAAAAATATTGACTTTATTGGGTGGTGTTGGGAACCCAGCTGTGTGTGTTTAGGATGGAAGTGCTGGAAGTTTTGGGAATGAATAGATTAAAGTATTTGTGTGTATGTGAATTTTCTCTGTTCATGTTGGCTTGCTTTGCATTTAGACAAACCTTTGCTAGTTCCAAAAAACAAATGGAGGTTCTGACTGCCCTTTATCCATATTTATGCCTTTTTAAAGTATGTTAAATGTGACCTGTATTTACAAGGAATGTCTTTGTAGGATTAAACCTCAGTCTTGTGGGGGGTTTTCAACTCTTAAATTTATTCTTAACACCCTAAGTGGACCCCATTGCAAAACACATACATGTTTTAATAACTATAAAATGTAATATTTTAATAATAGAACCATTTCCCCTCTAGTGATAAAGGGTAGAATTGCCTCTGTTGTTCTTTTCATGTGTGTTGTTGTTGTTCCTTTCATTCTGTTTTCCTTTACATGTACCCTGTTTTGCAATCACATAACACCAGACATGTATGGTTTTTGCTTGTCTATTGTTAAACTGAATTTGGAAAAGTGAATATTTTTCTATTGTTGTTAGTTATGCTTCTGTTTGATTCTTTTGCACTGGACATTCAAGATAAATGAAGTCATTAGTTCTTTTTGAAGAAAAAATGTTTATGCCATGTTCAATAATTGCTGCTTTGTCCGGCTGGAAGCAGATCACTAACTCCCCCTTCTTGGCTCTCCCCAG
Seq C2 exon
CTGAAAGCCGTCCACGAACAGCTAGCTGCTCTTTCTCAGGCCCCTGTAAGTAAACCAAAGAAAAAGAAAGAGAAGAAAGAAAAAGATAAGAAAAAGAAAGAGAACAAGCACAACAAATCCAAGCCAGAGGAAAAAGCCAAGCCGGGACAGCCACCGAAACCAGCCCAGCAGAAAAAGGGTCCCACCAGAAAGGCTAACAGCACTGTTCCAGGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006527:ENSDART00000135239:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.870 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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTATCTCTTTGGAGCACCCCA
R:
GCTGTTAGCCTTTCTGGTGGG
Band lengths:
270-1135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]