BtaINT0110676 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001634 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr23:7530937-7531280:+
Coord C1 exon
chr23:7530937-7531037
Coord A exon
chr23:7531038-7531131
Coord C2 exon
chr23:7531132-7531280
Length
94 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CCTGTCTGTTCCACCTGCAGAGG
3' ss Score
11.4
Exon sequences
Seq C1 exon
CTTATCACCAGGACTGCCATGTTCCAAGGGCCCCAGCCCCTGGAGAGGGAGAGGGCGCATCCTGGGTCTGCCGCCAGTGCGTTTTTGCCATCGCCACCAAG
Seq A exon
GTAAGGGCCCCTTCCTGTGGGACCTCCCACCCCCAGCCTCTCCTGAACCCTTCCTTCCCCCACCTCTGAGGCCACCTGTCTGTTCCACCTGCAG
Seq C2 exon
AGGGGGGGTGCGCTGAAGAAGGGCCCCTATGCCCGGGCCATGCTGGGCATGAAGCTCTCCCTGCCGTATGGACTGAAGGGGTTGGACTGGGACGCTGGGCATCTGAGCAACCGGCAGCAGAGCTACTGTTACTGTGGTGGCCCTGGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001634:ENSBTAT00000002140:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(29.3=35.3),PF0062824=PHD=PD(53.7=85.3)
A:
NA
C2:
PF0062824=PHD=PU(14.5=16.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGACTGCCATGTTCCAAGG
R:
AGTCCAACCCCTTCAGTCCAT
Band lengths:
181-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]