DreALTD0013591-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000052150 | pbx4
Description
pre-B-cell leukemia transcription factor 4 [Source:ZFIN;Acc:ZDB-GENE-000201-18]
Coordinates
chr3:52807096-52816935:+
Coord C1 exon
chr3:52807096-52807144
Coord A exon
chr3:52807145-52807252
Coord C2 exon
chr3:52816849-52816935
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
GTTGCTGTGTGTTTCTCCAGGTG
3' ss Score
10.64
Exon sequences
Seq C1 exon
GTCTCGAATTGGTTTGGCAACAAGAGAATTCGGTACAAGAAGAACATTG
Seq A exon
GTAAGTTCCAGGAGGAAGCAAACCTGTACGCCGTTAAAACAGCCGTGGACGCCGCCAATGTGTCGGCACAGGCCAGCCAGGCAAACTCTCCAGCAACACCCAACTCAG
Seq C2 exon
GTGGATATCCTGCACCGTGCTACACACCTGACGGCAGGCTATGAAGATCTGTCAGCAAGTCCTCTTTACACCCCACACCGTCTAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052150-9-16,10-16-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.244 A=NA C2=0.372
Domain overlap (PFAM):
C1:
PF070346=ORC3_N=FE(17.4=100),PF0004624=Homeobox=PD(23.3=82.4)
A:
NA
C2:
PF070346=ORC3_N=PD(1.1=6.2)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCGAATTGGTTTGGCAAC
R:
AGACGGTGTGGGGTGTAAAGA
Band lengths:
132-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]