BtaINT0110671 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001634 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr23:7532882-7533326:+
Coord C1 exon
chr23:7532882-7532976
Coord A exon
chr23:7532977-7533245
Coord C2 exon
chr23:7533246-7533326
Length
269 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TTTCTTCCTTCCCAACCCAGCAG
3' ss Score
6.36
Exon sequences
Seq C1 exon
GCCTCAGTGTCTCCACCACCCTCCAGCCCTAACCAGAGTTACCAGGGCAGCAGCGGCTACAACTTCCGGCCCACAGATGCCCGCTGCCTGCCCAG
Seq A exon
GTCAGTGCGCCTCCTCCCTCCAACCAGACACACTCCCTTGGAACCTCTCTTCCAGTTGCCTACAAGCTTCTGGATTTCCTCACCCAATATTCTTTTCCCTCTCCCCTTTGGCTGCCCACTTCTTTACCTAGAGACTTCGAGACCAGTGTCTGCTCCCCAGTATTCTAGAGCCGGGTTCCTTGAGGATAGTGTTTGCGCTCTGCCCTTCCCAGGGGGAGAGGGTCCTATTCCCCTGCTTTGGGTCCTGACTTTCTTCCTTCCCAACCCAG
Seq C2 exon
CAGTCCCATCCGGATGTTCGCTTCCTTCCACCCCTCTGCCAGCACCGCAGGGACCTCTGGGGATGGTGAACCCCCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001634:ENSBTAT00000002140:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 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
Human
(hg38)
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:
CTCAGTGTCTCCACCACCCTC
R:
CTGTCTGGGGGTTCACCATCC
Band lengths:
174-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]