BtaALTA0021903-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000001634 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr23:7532397-7532799:+
Coord C1 exon
chr23:7532397-7532501
Coord A exon
chr23:7532621-7532625
Coord C2 exon
chr23:7532626-7532799
Length
5 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
CTCTTACAGCTTCCCTTCAGGGC
3' ss Score
5.73
Exon sequences
Seq C1 exon
TTTCATTTCAGGGAGGGAGATTAAGAAGAGGAAATGCTTGTTTGGTCTCCATGCTCGGATCCCTCCCCCTGTGGAGCCCCCTCCTGGAGACGGAGCCCCCACCAG
Seq A exon
GGCAG
Seq C2 exon
GGCCCTGGGGGAGGGGTCTCACGTCCCCTGGGGAAGCGCCGGAGGCCGGAGCCAGAGCCCCTGAGGAGGAGGCAGAAGGGGAAAATGGAGGAGCTGGGGCCACCCTCAGCAGTGCGCAACCAGCCCGAGCCCCAGGAGCAGAGGGAGCGGGCTCGTCTGCAAAGGGCACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001634-14-18,14-17,14-16-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTTTGGTCTCCATGCTCGG
R:
GACGTGAGACCCCTCCCC
Band lengths:
93-98
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development