BtaALTA0021293-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000009975 | PBX4
Description
pre-B-cell leukemia homeobox 4 [Source:HGNC Symbol;Acc:HGNC:13403]
Coordinates
chr7:3678159-3678846:+
Coord C1 exon
chr7:3678159-3678403
Coord A exon
chr7:3678656-3678697
Coord C2 exon
chr7:3678698-3678846
Length
42 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATC
5' ss Score
4.28
3' ss Seq
GGCATGTGTCCCCACCCCAGGCC
3' ss Score
6.52
Exon sequences
Seq C1 exon
TGTCGAGCATCCATGGCATTCAGGAAGTGGGCCCCCCTGATGCTCAGCTCCTGAGGCTGGATAACATGCTGCTGGCCGAGGGCGTGTCCAGGCCTGAGAAGCAAGGGAGGGGAGCATCGGCAGCAGCCAACGCAGCAATGCCAGGTGGCCGTCCAAACGACAGTGGCCTTGAGCACTCTGACTACAGGGCCAAGCTGTCCCAGATCCGACAGATGTACCACTCCGAGCTAGAGAAATATGAACAG
Seq A exon
GCCTGCCGTGAGTTCACCATGCACGTCACCAACCTTCTCCAG
Seq C2 exon
GAGCAGAGCAGGATCAGGCCCGTCTCGCCCGCGGAGATAGAGCACATGGTGGGGGTCATCCACGGCAAGTTCCAGAGCATCCAGATGCAGCTGAAGCAGAGCACCTGTGAGGCTGTGATGGCCCTGCGCGCGAGGTTCCTCGACGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009975-7-6,7-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.707 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF037928=PBC=FE(41.5=100),PF070286=DUF1319=PU(34.9=36.6)
A:
NA
C2:
PF037928=PBC=PD(31.3=95.3),PF070286=DUF1319=PD(62.8=84.4),PF0004624=Homeobox=PU(0.1=0.0)
Main Skipping 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:
TGGCCTTGAGCACTCTGACTA
R:
CACCATGTGCTCTATCTCCGC
Band lengths:
133-175
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development