BtaINT0026721 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011074 | BRD2
Description
Bos taurus bromodomain containing 2 (BRD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001045866]
Coordinates
chr23:7243991-7245015:+
Coord C1 exon
chr23:7243991-7244365
Coord A exon
chr23:7244366-7244886
Coord C2 exon
chr23:7244887-7245015
Length
521 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCC
5' ss Score
9.16
3' ss Seq
GATGCTGCCTCCTTCTGCAGCGG
3' ss Score
9.38
Exon sequences
Seq C1 exon
AAAAAGGGGGTAAAGCGGAAAGCAGATACTACCACCCCTACACCTACAGCTATCCTGGCTCCTGGGTCCCCAGCTAGCCCTCCAGGGGGTCTGGAGCCTAAGGCAGCACGGCTCCCCCCTGTGCGTAGAGAAAGTGGCCGCCCTATCAAGCCCCCACGCAAAGACTTGCCTGACTCTCAGCAACAACACCAGAGCTCCAAGAAAGGAAAGCTGTCGGAACAGTTAAAACATTGCAATGGCATTTTGAAGGAATTACTGTCTAAGAAGCATGCTGCCTATGCCTGGCCTTTCTATAAACCAGTGGACGCTTCTGCTCTTGGCCTGCATGACTACCATGACATCATTAAGCACCCCATGGACCTCAGCACTGTCAAG
Seq A exon
GTACCCACTGCATGGGGCAGATGGGATACTCAGGCAGTGATTGGAACCTAAGGATCAATAAAACAGTCACTTTTTATGGGCGTGCAGCTATCTTGGTGTTTTACTTTTACAAAATAGTGAGGCAGAAGGTCACATACTCTAATGAGTCCATATTTTCTGGAATTGGAAACAATGTGGTGGGTTTTACGTTCAGAGCATCACTCCTTGTCCTCAGGTCCTATCTACTGGAAGTGTTGGGTTAGGGTAGGTGAGTAAAGGGGTAGCCCAATAGTTGGAGGCCACACACACCTCCACTTTTCGCTTAGAAATAATGGGTTTTTCCCCTTAGACATAGATATTTATTCAGCCCACCCAAATTCCTTTGACTTCAAACTTGAGCCCCAGGGTATAGGTCCTTCCTGTCATGTACATCCCACCCCCCACTGTGCTGTCTAGAGGGCTGTTCTTGGCAGTGTCTGGGCCTGGCAGGGAAAGGTGAGTCTCCCTGCCTGTGCAGCTTCTGATGCTGCCTCCTTCTGCAG
Seq C2 exon
CGGAAGATGGAGAATCGCGATTACCGGGACGCACAGGAGTTTGCTGCTGACGTGCGGCTTATGTTCTCCAACTGCTATAAGTATAATCCTCCAGACCATGATGTTGTGGCCATGGCGCGAAAGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011074:ENSBTAT00000014704:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.648 A=NA C2=0.326
Domain overlap (PFAM):
C1:
PF090735=BUD22=PU(20.1=52.0),PF0043920=Bromodomain=PU(52.8=37.6)
A:
NA
C2:
PF090735=BUD22=FE(13.0=100),PF0043920=Bromodomain=PD(44.9=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAGTGGCCGCCCTATCAAG
R:
TGGCCACAACATCATGGTCTG
Band lengths:
358-879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]