BtaINT0110668 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001634 | PHF1
Description
PHD finger protein 1 [Source:HGNC Symbol;Acc:HGNC:8919]
Coordinates
chr23:7532170-7532501:+
Coord C1 exon
chr23:7532170-7532237
Coord A exon
chr23:7532238-7532396
Coord C2 exon
chr23:7532397-7532501
Length
159 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CATTTCTCTCCTCATCCCAGTTT
3' ss Score
6.86
Exon sequences
Seq C1 exon
CTCTCAGAAACCCCCAAGGGAGAACGGTCTTCCAAGCTCCTCTCCGCTCTCAACAGCCACAAGGACCG
Seq A exon
GTGAGTCGGAGGGAGGCTCAGGAGGAGATGGAGATGTGGAGACGCAGCCTGAGAGGGAGGGGCTGCAGCCCACCTGGAAGATGCCCTCTGAGGACTGACAGCACAGGAGGGTCCCTTTTCTCCAGCACTGACCCTGTATCATTTCTCTCCTCATCCCAG
Seq C2 exon
TTTCATTTCAGGGAGGGAGATTAAGAAGAGGAAATGCTTGTTTGGTCTCCATGCTCGGATCCCTCCCCCTGTGGAGCCCCCTCCTGGAGACGGAGCCCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001634:ENSBTAT00000002140:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.261 A=NA C2=0.500
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTCAGAAACCCCCAAGG
R:
GGCTCCGTCTCCAGGAGG
Band lengths:
165-324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]