BtaINT0110679 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001634 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr23:7531716-7532063:+
Coord C1 exon
chr23:7531716-7531784
Coord A exon
chr23:7531785-7531939
Coord C2 exon
chr23:7531940-7532063
Length
155 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ACAAGTCAGTGTTTCTCCAGGGT
3' ss Score
2.19
Exon sequences
Seq C1 exon
GTTCTATGAGTTTGAGTGCTGTGTGTGTCGGGGGGGCCCTGAGAAGGTCCGGAGGCTACAGCTTCGCTG
Seq A exon
GTGAGCTGGATATGGGGCACGACCTCAGCATCACTCCTCTTTCCGTCCCCCTAGTTTTTCACTTTACAGGCCCCAGCCCCCTACCTGGGGGACACCCCTGCCTGCCCCCTGTCTTGTAATGCTTCCACCACCTTGACAAGTCAGTGTTTCTCCAG
Seq C2 exon
GGTGGATGTGGCACATCTTGTCCTGTACCATCTCAGTGTTTGCTGTAAGAAAAAATACTTTGATTTTGACCGTGAGATCCTCCCCTTCACCTCTGAGAATTGGGACAGTTTGCTCCTTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001634:ENSBTAT00000002140:8
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:
PF0062824=PHD=PD(25.5=58.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGTTTGAGTGCTGTGTGTGT
R:
CTCCAAGGAGCAAACTGTCCC
Band lengths:
186-341
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]