BtaALTA0004601-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000010582 | BRD3
Description
Bos taurus bromodomain containing 3 (BRD3), mRNA. [Source:RefSeq mRNA;Acc:NM_001076873]
Coordinates
chr11:104863856-104868698:-
Coord C1 exon
chr11:104868475-104868698
Coord A exon
chr11:104864145-104864148
Coord C2 exon
chr11:104863856-104864144
Length
4 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CCCCTTGCCTTCTGCCTCAGACA
3' ss Score
8.46
Exon sequences
Seq C1 exon
CTGAAGGCTGTGCACGAGCAGCTGGCGGCTCTGTCTCAGGCGCCGGTGAACAAGCCAAAGAGGAAGAAGGAGAAGAAGGAGAAGAAGAAGAAGGACAAGGACAAGGAGCGGCACAAGGCCAAGGCCGAGGAGGAGAAGCGGGCCAAGGCCGCCACGCCCGCCAAGCAGGCCCCGCAGAAGAAGGCGCCCGCCAAGAAGGCCAACAGCACCAGCGCGGCCGGCAG
Seq A exon
ACAG
Seq C2 exon
CCGAAGAAGGGCGGCAAGCAGGCATCGGCCTCCTACGACTCGGAGGAAGAGGAGGAGGGGCTGCCCATGAGCTATGATGAGAAGCGGCAGCTGAGCCTGGACATCAACCGGCTCCCTGGGGAGAAGCTGGGCCGCGTGGTGCACATCATCCAGTCGCGGGAGCCCTCGCTGCGGGACTCCAACCCCGACGAGATCGAGATCGACTTCGAGACCCTGAAGCCCACCACGCTGCGGGAGCTGGAGAGATACGTCAAGTCTTGTTTACAGAAAAAGCAAAGGAAGCCGTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010582-11-17,11-16-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.929
Domain overlap (PFAM):
C1:
PF112443=Med25_NR-box=PU(50.0=40.0)
A:
NA
C2:
PF112443=Med25_NR-box=PD(48.3=29.3),PF084185=Pol_alpha_B_N=PU(31.4=37.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGAAGGCCAACAGCACCAG
R:
CCCTCCTCCTCTTCCTCCGAG
Band lengths:
92-96
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development