BtaINT0026729 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010582 | BRD3
Description
Bos taurus bromodomain containing 3 (BRD3), mRNA. [Source:RefSeq mRNA;Acc:NM_001076873]
Coordinates
chr11:104875085-104877300:-
Coord C1 exon
chr11:104877086-104877300
Coord A exon
chr11:104875457-104877085
Coord C2 exon
chr11:104875085-104875456
Length
1629 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGCCGTCTCCACTGTCACAGAAG
3' ss Score
4.98
Exon sequences
Seq C1 exon
GCTCGCAGCAGGTGGCGGCCGTGTCCTCCGTGTGCCCGGCGACCCCCTTCCAGAGCGTCCCCCCCACGGTCTCCCAGACGCCCGTCATCGCCGCCACCCCCGTGCCAACCATCACCGCAAACGCCACGCCGGTCCCTGTCCCCCCGGCCGCCGCCCCGCCTCCCCCTGCCACGCCCATCATCCCCGTGGTCCCTCCCACGCCGCCTGTCGTAAAG
Seq A exon
GTGAGCTTTCCCGGGGTCCCGGGCGTGGGCTTGTGTGGGTGGGCGGGGGGCGCTCTGTCCCGTCCCCGGGCACAGGCTGCCCCTGGCGCACTGGGCACACGGGCCTCTGGACCAGTCCTGTCCGCCCACGCCTGCGGGGTGGGCCGTGATTCCTGACACCGACGCTCGGAGCCGCAGGTCACACAGCTGGCGAGGGCGGCTGGGCTGGGACTGCAGCGTCTCTGGCCTCCGTGGTGTACATGGGTTCCCGGCGGGGCGTGCAGGGGGTGAGGGCACACTCGGATTTCCAGTGGTTGGCGGTGGCGGCCTCCTTGCGCGCCCCTTCCTGGCTTTGCCAGGAGCCTCCCCCGCAGGGCCTGGGCTTGGAGCGCTTGCTTTCCGCGAGGTCCGCGGCCAGCAGGGACAGCCGAGGGTCCCGCTCCCACTGACACACACCGTCTTCTCCGGTTTGACCCTCACAGCAACCCTCGGGGGCAGGCAGTGTTTCCCCCATCTTTCAGATGAGGAGGCAGGCGCTCAGAGGGGTTAAATGGCTCCCCCAAGGTAAAATGCCGCTCGCCCTGCCCGGCGGCCTCCACTGCCTGCCCTTGGGCGGCGCTGGCAGGCTGTCCTGCCCAGCACCCTGCTGCCTTGGAGCATGTCCCGTCTGCCGCGGCCCGTGAGCCCAGGGGCCCCGCGGCGCGCTTGGCCTGCCGTGGGCACCGTGACGTGTGTGTGTGGGTGGCTGGCTCGTGCCTGCCGGCCTGGGGGCAGGGGCTTGGCTGGGGCAGTGCCCTTGGTGGCTGGCCTTGGTGGCGTGCACGCTGCGGACCCTGGGGAGGCCGCCGGCCGGGTGCTCGTGGCTCCCGGGGGCTGTCCCGCCTGCCTGACGGCGGTGGTGGGGGGCAGACCCTGAGCTGGTCTTGGGGTGGCTCTGCACCCTGGCTGCCCAGGCGCTCGACACTGTCTCCCCATGGTGCCCGCCCAGCAGGGGCGGGCGGATCGTCTCAGTGTTCCCTCCCTGGGCGGGGAGCCGCTCCTAAGGTCAGCTCTGGACCTGCCCAGCACTCTGCCCCAGGGTCCCGGCCCCCAGACCTTGCGCCCCTCCTGGTGTCTCCGGTGCCCCGCCCCGCCGCCTGCATGCTCCTCCCAGCCCCTCATCCTGCGGCTGCCACTGTCCGCGGAGCGCCCGCTTTGAGGCCCGTGTCGGGGACGCCCCTCCAGCCTCTGACCTGCAGGGGTCTCTCATCTCTGCTGTCCCTGAGCCCCACTGGGTACCGTGTTGGTCGCAGAGGGACCCTGGTATTGCAGGCCCCTAAGCCGTGGTCTGGGCACAGGTGTGGGCACAAGTGGGCAGCGTGATGCGTCTCAGGGTGACGAGCGCCCCGTGACCGTGGGGCCTGGGGCCCGGGCAGCCTCAGAGTCCACCTCACCACCGCCAGCTGTGTGACCTCGGGCAGGCGCCGTGGCCCCTCTGAGCCTCGGCGTCCTGCGTGGCGCGGGGGCCTTGGGAGGGCGGCGGTGGCCGTGCATGCCCTTGCTTCGCTCGGGGCCTGGCGGGCGGTCCGCGCTCCAGGAGCGCCTTTGGGCGGGTCCTGGTCCCCCCTGCCCCCCGTGGGCGCCGGCTCATGGCCGTCTCCACTGTCACAG
Seq C2 exon
AAGAAGGGCGTGAAGCGGAAAGCAGATACCACCACGCCCACGACGTCCGCCATCACGGCCAGCCGCAGCGAGTCGCCCCCGCCGCTCTCGGACCCCAAGCAGGCCAAGGTGGTGGCGCGGCGGGAGAGCGGGGGCCGCCCCATCAAGCCGCCCAAGAAGGACCTGGAGGACGGTGAGGTGCCGCAGCACGCGGGCAAGAAGGGCCGGCTCTCTGAGCACCTGCGCCACTGCGACAGCATCCTCAAGGAAATGCTCTCCAAGAAGCACGCGGCCTACGCCTGGCCCTTCTACAAGCCGGTGGACGCCGAGGCCCTGGAGCTGCACGACTACCACGACATCATCAAGCACCCGATGGACCTGAGCACTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010582:ENSBTAT00000013992:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.812 A=NA C2=0.758
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043920=Bromodomain=PU(52.8=37.9)
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:
CACGCCGCCTGTCGTAAAG
R:
GATGTCGTGGTAGTCGTGCAG
Band lengths:
358-1987
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development