GgaINT0123974 @ galGal4
Intron Retention
Gene
ENSGALG00000002682 | BRD3
Description
bromodomain containing 3 [Source:HGNC Symbol;Acc:HGNC:1104]
Coordinates
chr17:7163410-7164666:-
Coord C1 exon
chr17:7164475-7164666
Coord A exon
chr17:7163646-7164474
Coord C2 exon
chr17:7163410-7163645
Length
829 bp
Sequences
Splice sites
5' ss Seq
CAGGTTACT
5' ss Score
0.49
3' ss Seq
TTTTCACAATTCTCTTCCAGCTA
3' ss Score
8.47
Exon sequences
Seq C1 exon
GATGTCTTTGAGATGAGGTTTGCAAAGATGCCTGATGAGCCTGCAGAGGCCCCTCCTCCTCCTCCTCCAACAGCACCAGTTGTGAGCAAAAGCACAGAGAGCAGTCACAGCAGTGAGGAGAGCTCTTCTGACTCAGACAGCTCAGACTCGGAAGAAGAGCGAGCAACTCGGCTGGCAGAGCTCCAGGAGCAG
Seq A exon
GTTACTGTGGTGGCCAAGCTGTGTGTCTGTAGTAGAAAGGGCTTAGCAGGAAGGAGGATTTAATTTTGTTCTTAAAAATCCCAGCTAGCTTGGGATGCAGTAGGGAGATCACTCCTTCTGCCAGCTCAAAGAGGAGAGCTCTCAGCAGGGAAATAATTAGTGCATTTTTGATGCGATGTTAATTTTCTTTGAGATAAACATTCTCAGTGCTGATGCTCTGGGCTTCTTGATGGGCATCCTGGAGTATTCAGCCACCATCAACAGTACGAGTCTGAGAAGCACTGAGAGATCCATTTAGTATGAGAGCTCAAGCACAACAAAATCTGTCACAAGCTTCCTGTGGGATGTTTTCACTGTGTTCTCCATCCATAGAATTAACTATTTTGACTGTTGTGGTTGCAAGACCTTAAGCCATAGCTTTTCTTACTATGCACGTGTACAGTGCGAGTTGCTACAGTGGTTGTTTGTGCTGCTGTAATATAACCAAACATTAATAAGGTAGCTTATCCAATGCCTCAGAGCAAGGTAGTAGGAAACTTAAGAAGTAAACCTAGTATTTCAGAGTCCACGTTGTCAGCACTCTAGACAAAGCTATTAAGTATTTTATTTGCCTCTTGTGAGGCAATAATTAAGTTTTCACATCAGTTAGCTTCTGCGCACCTGAACTGCATTCTTTTAAGAACTTCAGATCAGAGTTTCCGAAGTTCAGTCTGCAGGCTCACTAACTTTGAGATATACTTAAGTGTCCAGGATATAGAGGGAAGAGTACGTGGAGGCATCAATTATCTTGCCTTGAAGTCTGATTTATTTTTTCACAATTCTCTTCCAG
Seq C2 exon
CTAAAGGCAGTCCATGAGCAGCTAGCTGCGTTATCACAAGCACCAGTGAACAAACCAAAGAAAAAAAAAGAGAAGAAGGAAAAAGAGAAGAAAAAGAAAGACAAAGAGAAGGAAAAGGAAAAGCACAAAGTAAAAGCTGAGGAGGAGAAGAAGCCTAAGGTGGCTCAACCACCGAAGCAAACCCAGCAGAAGAAAGCCCCAGCTAAAAAGGCAAACAGCACGACCACAGCTAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002682:ENSGALT00000004226:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.953 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF087385=Gon7=PU(50.6=70.3)
A:
NA
C2:
PF087385=Gon7=PD(47.2=53.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTCCTCCTCCTCCAACAG
R:
GTTTGCCTTTTTAGCTGGGGC
Band lengths:
356-1185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]