GgaINT0123977 @ galGal3
Intron Retention
Gene
ENSGALG00000002682 | BRD3
Description
NA
Coordinates
chr17:7841265-7843047:-
Coord C1 exon
chr17:7842919-7843047
Coord A exon
chr17:7841666-7842918
Coord C2 exon
chr17:7841265-7841665
Length
1253 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
GTAATGGCTATGGTTTTACTGTGCTACTGATGCCTGAAAAGTTGTGTGTGCAGGTAGTCTTCCTCACTAAGGCAAACCTACTGCCTTTGTGCAGCCTTGGGCTTATCTATGGAAGTTTTCCCTAGTCTGTCATTAGTGTGGGCACAGCAAGTTACTGCTGGGCACCTGAGCTACTCTTGGGGTCTACTCTGATCCTGTTGGAAACTCCTCTTGGTGGTAAATAGGACCTGTCTTAGAGATTATTCATACTTCAGAGGAAGATATGCTGCTCTGTTAGTCTGTGCATGGTTGTTCATACAGTACCATGGTAAACCAGTACCATAGTTCAAACCAGTACCATAGCATGTTTAGTGGGTGATTTTTCTCCATCGTGGGATTGAAAAAGCCACCTCACAATGCAGAAGTGTAAAAGATGGGATGAAAGGTTATTCCAGTGCAAATTGAGCTGCTTCCACCTTGCCCTGAATCACAGCAGGCAGTGAGCACAGCTGCCTGGGCACTCTGTGCCACCTTGCCATGAGCACTTGACAGCTGTGGGTGGCCCATAAAAGTTTGTGGCCATGCATTGGAGCACCGCAGTGCCCTCCACAGGGATTCAGTTCAGGGCCCAAACCTTGCATGGCCACCTGCAGCAGTAGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGCCCTCCACAGGGCTCCAGTGCAGGGCCCAAACCTTCATGGCCACCTTTAACATTAGAAACCCTGCTGTCCCCTGGGCCAGGCATTGTTCCAGCTGGCAAAGTCAGTGGGTCAATAAACTGCCCAGGCAAAACGAAGCTATGAATGAAGCTGTGGATGACAAAAGCCATTGGCAAACCTTCTCTATTGAGTTCAGCTCCTTGGAAGTTACCACTTCGCTGCCTTCTTTCCCGCAG
Seq C2 exon
AGAAATCTGGCTCTGCTCCCTCTGGGGGCCCTTCCCGGCTCAGCAGCAGCAGCTCCTCCGAGTCGGGCAGCAGCAGCTCCAGCGGCTCCAGCTCAGACAGCAGCGATTCAGAATGAGCTACGGACACTTACACGAAACACAGAATGGACATCACCCTCACCGATGCTCTGCAGTGTCCCTTTCTCTCCTTAAAGTACTGCTCTTGTTCCATGGTGGTCAGGTGTTTGTTTGTTTTTCTTCCTCTCTGACTTTTTTTTTTGTTTGTTTTTTTAATCCAGTGTTATAAAACGTATCTTCCATTTTTCAGGCGCGTTCTTTTTATGAATAGGTCGAAGATCTTTGCATGTGTGTGACTAGACTTTATGGCAAACAGTTCCCTTTGCGTAAAGTCTCTAAAATAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002682:ENSGALT00000004226:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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:
357-1610
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]