HsaALTD0000739-3/3 @ hg19
Alternative 5'ss
Gene
ENSG00000204256 | BRD2
Description
bromodomain containing 2 [Source:HGNC Symbol;Acc:1103]
Coordinates
chr6:32945942-32947909:+
Coord C1 exon
chr6:32945942-32946091
Coord A exon
chr6:32946092-32946165
Coord C2 exon
chr6:32947605-32947909
Length
74 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
ACAACTCTTTTTGCCCTTAGGCT
3' ss Score
9.5
Exon sequences
Seq C1 exon
GGTCCAATATCCAAGCCCAAGAGGAAAAGAGAGAAAAAAGAGAAAAAGAAGAAACGGAAGGCAGAGAAGCATCGAGGCCGAGCTGGGGCCGATGAAGATGACAAGGGGCCTAGGGCACCCCGCCCACCTCAACCTAAGAAGTCCAAGAAA
Seq A exon
GCAAGTGGCAGTGGGGGTGGCAGTGCTGCTTTAGGCCCTTCTGGCTTTGGACCTTCTGGAGGAAGTGGCACCAA
Seq C2 exon
GCTCCCCAAAAAGGCCACAAAGACAGCCCCACCTGCCCTGCCTACAGGTTATGATTCAGAGGAGGAGGAAGAGAGCAGGCCCATGAGTTACGATGAGAAGCGGCAGCTGAGCCTGGACATCAACAAATTACCTGGGGAGAAGCTGGGCCGAGTTGTGCATATAATCCAAGCCAGGGAGCCCTCTTTACGTGATTCAAACCCAGAAGAGATTGAGATTGATTTTGAAACACTCAAGCCATCCACACTTAGAGAGCTTGAGCGCTATGTCCTTTCCTGCCTACGTAAGAAACCCCGGAAGCCCTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204256-20-31,21-31,22-31-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.760
Domain overlap (PFAM):
C1:
PF090735=BUD22=FE(27.0=100)
A:
NA
C2:
PF090735=BUD22=PD(13.0=40.8),PF0310514=SPX=PU(23.9=26.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
GAAACGGAAGGCAGAGAAGCA
R:
CCTGCTCTCTTCCTCCTCCTC
Band lengths:
179-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)