GgaINT0123977 @ galGal4
Intron Retention
Gene
ENSGALG00000002682 | BRD3
Description
bromodomain containing 3 [Source:HGNC Symbol;Acc:HGNC:1104]
Coordinates
chr17:7159214-7160749:-
Coord C1 exon
chr17:7160621-7160749
Coord A exon
chr17:7159807-7160620
Coord C2 exon
chr17:7159214-7159806
Length
814 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CGCTGCCTTCTTTCCCGCAGAGA
3' ss Score
12.08
Exon sequences
Seq C1 exon
CTGCAAGTGGAAAAAAGCAAGCAGCAAAGTCTAAAGAGGAGTTAGCTCAGGAAAAGAAGAAAGAACTAGAAAAACGGCTACAGGATGTCAGTGGGCAGTTAAACAACAACAAGAAACCTGCAAAGAAAG
Seq A exon
GTAATGGCTATGGTTTTACTGTGCTACTGATGCCTGAAAAGTTGTGTGTGCAGGTAGTCTTCCTCACTAAGGCAAACCTACTGCCTTTGTGCAGCCTTGGGCTTATCTATGGAAGTTTTCCCTAGTCTGTCATTAGTGTGGGCACAGCAAGTTACTGCTGGGCACCTGAGCTACTCTTGGGGTCTACTCTGATCCTGTTGGAAACTCCTCTTGGTGGTAAATAGGACCTGTCTTAGAGATTATTCATACTTCAGAGGAAGATATGCTGCTCTGTTAGTCTGTGCATGGTTGTTCATACAGTACCATGGTAAACCAGTACCATAGTTCAAACCAGTACCATAGCATGTTTAGTGGGTGATTTTTCTCCATCGTGGGATTGAAAAAGCCACCTCACAATGCAGAAGTGTAAAAGATGGGATGAAAGGTTATTCCAGTGCAAATTGAGCTGCTTCCACCTTGCCCTGAATCACAGCAGGCAGTGAGCACAGCTGCCTGGGCACTCTGTGCCACCTTGCCATGAGCACTTGACAGCTGTGGGTGGCCCATAAAAGTTTGGGCCCTGCATTGGAGCACTGCAGTGCCCTCCACAGGGCTCCAGTGCAGGGCCCAAACCTTCATGGCCACCTGCAGCATTAGAAACCCTGCTGTCCCCTGGGCCAGGCATTGTTCCAGCTGGCAAAGTCAGTGGGTCAATAAACTGCCCAGGCAAAACGAAGCTATGAATGAAGCTGTGGATGACAAAAGCCATTGGCAAACCTTCTCTATTGAGTTCAGCTCCTTGGAAGTTACCACTTCGCTGCCTTCTTTCCCGCAG
Seq C2 exon
AGAAATCTGGCTCTGCTCCCTCTGGGGGCCCTTCCCGGCTCAGCAGCAGCAGCTCCTCCGAGTCGGGCAGCAGCAGCTCCAGCGGCTCCAGCTCAGACAGCAGCGATTCAGAATGAGCTACGGACACTTACACGAAACACAGAATGGACATCACCCTCACCGATGCTCTGCAGTGTCCCTTTCTCTCCTTAAAGTACTGCTCTTGTTCCATGGTGGTCAGGTGTTTGTTTGTTTTTCTTCCTCTCTGACTTTTTTTTTTGTTTGTTTTTTTAATCCAGTGTTATAAAACGTATCTTCCATTTTTCAGGCGCGTTCTTTTTATGAATAGGTCGAAGATCTTTGCATGTGTGTGACTAGACTTTATGGCAAACAGTTCCCTTTGCGTAAAGTCTCTAAAATACATTTTTACTGAAGAAATTTGGTTGAAAATGGAAGAACTTGGAACTCTTTGCAGGAGATAACTAGTAGGTTTCTGCAGAGTTTGTAGTACGTCTCCCTTCTGCCCCTTCCTTCTCCCCAAACTGTTCTCTTTTAATAAGCCCACCTGGCTCACACAAGGTAAAAAAGAAATCTTTGAAGAAATCTGTAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002682:ENSGALT00000004226:11
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:
PF084185=Pol_alpha_B_N=FE(37.4=100)
A:
NA
C2:
PF084185=Pol_alpha_B_N=PD(32.2=94.9)
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:
TGTCAGTGGGCAGTTAAACAACA
R:
ACGCGCCTGAAAAATGGAAGA
Band lengths:
357-1171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]