BtaINT0026714 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011074 | BRD2
Description
Bos taurus bromodomain containing 2 (BRD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001045866]
Coordinates
chr23:7240060-7241955:+
Coord C1 exon
chr23:7240060-7240088
Coord A exon
chr23:7240089-7241651
Coord C2 exon
chr23:7241652-7241955
Length
1563 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGT
5' ss Score
8.4
3' ss Seq
TTTGTTTCCTATCTTCACAGGCT
3' ss Score
10.2
Exon sequences
Seq C1 exon
ATGCTGCAAAACGTGACTCCCCACAACAA
Seq A exon
GTACGTCCCTGCGAGCCGCGTGTGGGAAGGGGGCGTTGGGGGGCCGCGGCGCGCGCGGGTGAGGTGCCGAGTTCGGAGGGAGTGCGGAACCGACTCGGGCGCGTTGCTGTTTCGTGGCGCAACTGTTGGCTGTCGAGGCTCGCGGAGGGGGGTGAGCGGCGGTTTGGGGACTGTGGTAGCGGCCGCAGATCCTACGTATGGAGGGAGCGCAGGTAATTTACACGTTACTTTTCCGCTGTGGTCAGATTTTGGCTGAGTCGGGCAGAGCGAGGTGGCGGCGGAATATGCAACGGGGGAGGACTTGGATGGGGCAGCAGGTCCTGAGGGTAGTGGGTCTGGTGTCTAAGCGACCGTTTGTCCGGCCTTCAGTGGCTGGGGTTCGTGGCCACATCTTGTGCTTTACAGGGTTGCCATGGTGATAGAGCTTTGGGGACTGAAAACGGGGATTCCCTGAGTAGGGTACAAGGCCCACTCTTACTCTGGGTTCCTAATGTCGGGGATAGGTCCCTTTTCCGTGAGTGGTTTGGTTTTGTGTTGAGAGGAGTGTGTTGTGTTGCAGAAGATTGGATTTCTTGTCGTTTGTGTGTGTGTATATGAGAGGTACCATTGAGAGTTTCCTTCAGGGTAGAAAGGTGGAGCTAAGCTCTGGGATGTAAACAATGAGATCTTGGGCCTTGGGTAACACCTGGTCCTGAGGAGCCCCAGAGAGAACGTAAACTTGATGCATTGTTGGCCTTTGATCTCTAGAGGTGATGCTACAGTGGAGCCTGTTAATGGCATCGCAGCTTTTGGCAGAGGTTGGGTAGGGGGAGGTCTGTATCACTTTTATGGGGGAATTTGCTGACCTTGACTGTTCAGACAGCTCTGTTTTTTTGAGTCCTTTCGACGGAGGAGACTGAATTTGCGAATAGTTAATTCCTGGAGGCTGGTAGCTTGAGGTATTCCAGGCTGTGAAGTCTGACAAATACTCGCTTGTCTGGTTCCTTTTTTTTCTTGGTATGGATCCGTTAGATTGCTGGCCCGTTGTTTGGAGTTAACTATTCCGAGCTTTGTGGAGAGTGCTGATCCCTTCTGTACAGGTGGATTCTTAGGTGTCTGTCTCATCAGCGATTTATGAAATTTTCTGTTTTGTTTCTTTAGATCCGTTCCCCTCAGGCTCAACCACCATGGCAACCACCAAGCCCCTAGTGAGGAGGAAGCTTGGGGCTTGAGTTTCTTGGCTCCACCCATTTTGCTTAAGTTCTGTCCTCCTAAGGCTGTGATTCTTAAATGGCTGGGCCCTATGAGAAGCTACTTGGGCTTTTTCACTTTAAAACAGGTGAAGAAGCCCATCAGATTTTAAGAACTCAGAAGATAGGGCTTCTGTGGGTGTAGAAAAGGCGATAAGAGGTACAAGCACAAAAGCTCCACGGATTGTTTGGATACTGGATTCGCTTTCATAATCTTTACCACTGTTTTCACTTGATTCCAAGCCTAGATGTGCTGAGTGCAAATCTGTGAATTGTGGAATTCTACTAAATTCCACCAGATTACCACATCTGATTTTGTTTCCTATCTTCACAG
Seq C2 exon
GCTCCCTGGGGAGGGGAATGCAGGGTTACTGGGCCTGGGCCCAGAAGCAGCAGCGCCTGGGAAAAGGATTCGAAAGCCGTCTCTATTGTATGAGGGATTCGAGAGTCCCACAATGGCTTCAGTGCCGGCTTTGCAACTAACCCCTGCCAACCCACCACCTCCTGAGGTGTCCAATCCCAAAAAGCCAGGACGGGTTACCAACCAGTTGCAATATCTGCACAAGGTGGTGATGAAGGCTCTATGGAAACATCAGTTTGCATGGCCTTTCCGGCAACCTGTGGATGCCGTCAAACTGGGTTTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011074:ENSBTAT00000014704:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.422
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043920=Bromodomain=PU(31.8=26.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCTGCAAAACGTGACTCCC
R:
AAACCCAGTTTGACGGCATCC
Band lengths:
329-1892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]