BtaINT0026726 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010582 | BRD3
Description
Bos taurus bromodomain containing 3 (BRD3), mRNA. [Source:RefSeq mRNA;Acc:NM_001076873]
Coordinates
chr11:104860032-104862620:-
Coord C1 exon
chr11:104862492-104862620
Coord A exon
chr11:104860889-104862491
Coord C2 exon
chr11:104860032-104860888
Length
1603 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CACCTGTGCGTCTCCCCCAGAGA
3' ss Score
9.19
Exon sequences
Seq C1 exon
CCACGAGCGGGAAGAAGCAGGCGGCCAAGTCGAAGGAGGAGCTGGCTCAGGAGAAGAAGAAGGAGCTGGAGAGGCGGCTGCAGGATGTCAGTGGGCAGCTGAGCAACAGCAAGAAGCCAGCCAAGAGAG
Seq A exon
GTAGGGCCGCCCCCGTGCTGCTCGGGGCGGGGGAGAGGGCTGCGGCCCCCGGAACCCTGGTCTCCTTACCTGCGGCTGGGGCTCCGAGGCTGAGCAGGCAGCAGGCACGTGGGAAGGCGCCACTCTGCAGAGCTCCTGGGAGCGGCGTTTTGGCCCAGCCGTGGTCCATGGGGGGCCGGACTCTGTGACGTGGGAGGGACTGGGGCCCACCCTGCAGCTTCGGAGGGTTCTGGCCCCAGCAGTGAGCTTCCTGGTCGCCCCGGGAGAAGGACACTAGTGCCCAGCAAGTTAGCCAGCACCACAGGCGGGGAGAGGGGCTGACTGCCAGCCCCGACCGCGTGCTCTGTGGACTTTGGGGTCTCAGTTTCGGTGAGCAGGTGCTTCGACTCCTTGCCTCCTTTCTCTGGAGCCTGTAAGAAAGGGCACGTGCCTTTTTTCCTACCCAGGTGGTGGTCAGATTCTAGGCTCAGTCTTGGCCATGTAGCAGCCGGCTGCCACAGCCTTGCCTGGCCCTGCTTTCCCGGTGCCAGGGTGGGCCTTGGGGCCCTCCCCCTGCCACCGATGGCTGAGTTCCCTTGGATCAGCCCCGGAGAGGGCAGGGCAGGTGGGCACGTGGTTACGGCTCAGAGCCGCCTGCCCGGGGCCAGCCCGCCCCCACAGCCCGTCAGTGCCTCTCGGTTGGCGGCGCTCACTTCTTCCCAGGCCCAAGTGGTTTTGGCTTTGCTGGCCTCCGAGCTGGTTCTGTGCTCACTTCTGACACCAGCTGTGTGAGTTCCTCTCACACCAGTTCTCCAGGCTCCAACACGAGCTGGGCATCCAGCCGTTCAGTCAGTGCACTGTCTCCTCGGGGATGGTGCAGAGCCTGCAGGGTGAGGGCTCAGACGCCAGGTGCAAGTCCCCTGCCTCTCCCGTGCCTCTGACTGCCGGGCTGTGAATCGGGAACCCCCACGACCCTCTGCTCAGGTGTGCACACTCGCTGGAGTGGCTCACAGAACTCGGGAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCGGGAGCAGAACCAGCTCAGAGACCAGCAAAGCCGAATGCACTTGGCCTGGGAAGAAGTGAATGGCAGTTCCCTCCCCTCAGAGGTGGTGGCCAGCTGGGGGGCTGGCAGGGTGGGGCGGCGGGGCGAGCTGAAGAGTTCCCGCCCTCCAGTCACGTGGTCTTCCTGGTGACCAGCCAGGGCCGAGGCTCTCAGGGGGTCCCACCCCAGTCACTCGTTAGCATAAACTCAGGTGTGATCTAAAGGGCCCCACTCAGGAGGTCTTGGGGGACCTGGGAGCCCTGTGCCAGGGACATGTACAGGCACCAGACAGACTCCGCGCAGCCTCACCAGTGCGTTGACTCGCATCAGTAGATCTGTTAACATTTTTCAAGTGACCAGGTCAGGATCTGGGTGGGGGGGATGTGGAGCCAGCACAGGGGCTGCAGGAAAGGCCGCGCGGACGGTGGGGCGGCGGGCCGGTGCGGGGGTGCGCGCCGCTCACCTGTGCGTCTCCCCCAG
Seq C2 exon
AGAAGTCGGGCTCCACCGCGTCCGGGGGGCCCTCGCGGCTCAGCAGCAGCAGCTCCTCCGAGTCCGGCAGCAGCAGCACGAGCGGATCCAGCTCCGACAGCAGCGACTCCGAGTGAGCCCTGGACGCGCGCGGCTTGGGACGCAGCCGGTGGCCGCCGCCGCCGCGGGGACGCCGCGGCCTTCCCCCCGGCGGTTAATATACTCCTTTCGTTCCATGGCGTGCAGGCTCTCCTTTCACTTCAGTGTTATGGTATCTTCCAGTTCTGGCTTTAATAGGTCAACCAGGATCTTTCTGTGTGTGTCCATTAGACTTTGAGAAGCTGTGAATCGGCATAAGGTCTTTCCTCTGTAACTGAACTCAAGCCCCTTGGAGATGCCGGCTTCAGACGCTAACCTGGTAACTGTAGGAAACGTGTGAGGTGTGGTCTGAAGGTGCTTGCAGAGCCCCTTTCCTTACGCCCGACCTGGTCTGTAGCCCCAGCGAGAACGTCTCCCAAGGAAGTGTCTCGGACGTGGTGCCGCACGCGAAGGCTGTTGGCTTTGCCGACAGGGGTTTGTCTCCGTCTCCGGGGGCCCTGGGCCCTGACCCTTACGTCGAGGGCAGCTCTTTCTGCAGGGGCTGCGGACAGCCAAGCCCACCCCTGCCGTGAGTGAGGGCCAGGGCTGGGCTCCCGCCGGGAGGGGTCCCTGCGGTCCCCAGCCGGAGCTTCTGCTGGTGGGGAGCCGGCGAGGGGGCGTGCAGAGGAGCCGTCTTTCTGATCTCCCGGGAGGAACACGGTGGCTGCGTGGGCAGCGCGAGGGTTCCCAAACACTGAAACTTTTACCTCAACTTTGAAAAAAAAACAGAGAAAAGATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010582:ENSBTAT00000013992:10
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(36.4=100)
A:
NA
C2:
PF084185=Pol_alpha_B_N=PD(31.4=94.9)
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:
GCAAGAAGCCAGCCAAGAGAG
R:
TGCCGATTCACAGCTTCTCAA
Band lengths:
354-1957
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development