BtaINT0026734 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010582 | BRD3
Description
Bos taurus bromodomain containing 3 (BRD3), mRNA. [Source:RefSeq mRNA;Acc:NM_001076873]
Coordinates
chr11:104862492-104864148:-
Coord C1 exon
chr11:104863856-104864148
Coord A exon
chr11:104862621-104863855
Coord C2 exon
chr11:104862492-104862620
Length
1235 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
AGTGCCCTGCTCTCCCACAGCCA
3' ss Score
8.28
Exon sequences
Seq C1 exon
ACAGCCGAAGAAGGGCGGCAAGCAGGCATCGGCCTCCTACGACTCGGAGGAAGAGGAGGAGGGGCTGCCCATGAGCTATGATGAGAAGCGGCAGCTGAGCCTGGACATCAACCGGCTCCCTGGGGAGAAGCTGGGCCGCGTGGTGCACATCATCCAGTCGCGGGAGCCCTCGCTGCGGGACTCCAACCCCGACGAGATCGAGATCGACTTCGAGACCCTGAAGCCCACCACGCTGCGGGAGCTGGAGAGATACGTCAAGTCTTGTTTACAGAAAAAGCAAAGGAAGCCGTTCT
Seq A exon
GTAAGTTGCCGCGGCAGAGAGTGTTCCTGCCGCCCGCTGCCGTCTGTCTGCCGCTCCCTGGAGCAGAAAGCCAGGCAGCCCCAAGAGTGGTGGGGGGGCAGGCAGTGGGTCGCGGGCTCCAGATTCCTCCCCTGTCTTCCGTCTCACGCCCCCAGGATGCAAGGGTACAGCGTCTGTCTGCCCACCTCGGGATGGGGGGCTTAGCTGAGACGGGCTGCCAGCCACTCCCCAGCCAGAGCCCTTCTTCCCCCTGTTCCTGGGCAGCTGGGCGGCTCTTGTATGCCCCGGCCTTCACTAAAGCAGGCGAGACCCCCGAATTAGCCCCCAGCCCCTGGGTAGGTGGGCGGCGCTTATATGCCCTGGCCTTCACTGGTGCAGGCAGGGCCCCGGGGGTTGGCTCCAGCCACGTTCATGCAGATGCTGGCTAAGGCCCTCCATTTAGGGCCTGACTGCAGGTCACCTGTCAATGGTTCCCTGCCTGAGCAGACCGGTTCCCTTTGCCTGGGGTTGAGGGTCCAGAGGACTCCCAGGGTAGACAACTGCACTGGCTCAGGATTCACTGGATTGGAATGAGCCGCTGCCTGGGTCAGTGAGAGGAAGGGCAAGCCCCAGGCAGCCCCTTGGCAGCCCTGAGGACACTCAGGGTGCACTGTTCCTGTGTGTGGCCCCCTCGGGCCGCTGGCAGGGGCAGCCATGCCCCTGTCGGGGTGCTTCTCCCTTCCCCCAGGTGGTGAGGAGCCCTCCTGCCTGGGAGCTTGTTCTCTAGAAGGTGCTGGGTCCAATGTAGCCACAGTCAAGTGATCCCACCCTCCTGGCCTGGTTACAGGGTCCTCACGAGGGAAAGGAGAGGTATGCCCCTCTGTAGGGGGCAGCCTTCTGGATGGAGCATCTTGTTGCCCTCTGCGGCCCTGGCACATTTGGCCCTCGGTCAGTGGCCTGTGGACTCAGTGGTGCTGGCGCAGGTGTGCCAGGCGGTGGGCAGGGCTCCCACGTGGAGCCTTGGGAGAGCCTCGGCCTCGGCCACAGTGAAGGAAAACCAGGAGTTGGAGGAGGGTCCGGGCTTCAAGTCACCCCCGCCTGCAGCAGGGGGTGGTCAGTCCCACCTCAGGAGTTCTGTGACAGTTCCGGGGCTTTGCCTGTGGCAGGGGCTCCATCTGGGTGGGCAGGGGCACCGCCTTGGGGGGCTGGGCATCCGCCTGCCCTGCCCGCAGCCACAGTGCCCTGCTCTCCCACAG
Seq C2 exon
CCACGAGCGGGAAGAAGCAGGCGGCCAAGTCGAAGGAGGAGCTGGCTCAGGAGAAGAAGAAGGAGCTGGAGAGGCGGCTGCAGGATGTCAGTGGGCAGCTGAGCAACAGCAAGAAGCCAGCCAAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010582:ENSBTAT00000013992:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.929 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF112443=Med25_NR-box=PD(48.3=29.3),PF084185=Pol_alpha_B_N=PU(31.4=37.4)
A:
NA
C2:
PF084185=Pol_alpha_B_N=FE(36.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGCCCATGAGCTATGATG
R:
TGGCTTCTTGCTGTTGCTCAG
Band lengths:
350-1585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development