GgaINT1021408 @ galGal4
Intron Retention
Gene
ENSGALG00000001595 | PHF19
Description
PHD finger protein 19 [Source:HGNC Symbol;Acc:HGNC:24566]
Coordinates
chr17:8290078-8290886:-
Coord C1 exon
chr17:8290818-8290886
Coord A exon
chr17:8290199-8290817
Coord C2 exon
chr17:8290078-8290198
Length
619 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
GGCCTCGGTTGCTCCCGCAGGGT
3' ss Score
9.06
Exon sequences
Seq C1 exon
GTTCTATGTGTTTTTCTGCTCTGTGTGCAACCAGGGACCTGAGTACATCAAGCGCCTGCCCCTGCGATG
Seq A exon
GTGAGAAACAGACGTGGCCCTGTTGTGCTGTGCCAGGTCCCCATTGGGCTCATGGGACACCAGTGTGCTGTGCTGTGCTGTGCTGTCAGGGAGCCAAAGCACGCCTTCACCAGGAGATAACTGCAAAAAGCAATTTGGGAATGAGCCATCAAGTTTTGAGATTAAATACCATTTTCTGTGGTACTTTATAGTGCACCTCGATGATCTGAAAGCACTTTGTAAGATATCCTAACAGTGCTAGCTGCACTGGGGGTGTTGCGCAGAGCAGCACTGGGTACAGGAGAAGGGAAGTCCTGCAGGACATGTTGCTTGGCTTTCACTTTTGGAGATGCGAGTGTGAAGTCCCGCAGGAGGCTGTTTTGTAAGCAGTCTACATGTGAGTAAGAGCCATCCTGCTCCCGTAATTGACTGCAGTGAGAGCGCATGGCTGGAGCTTGGTAGAAAGCTGCAGCAGTGGCTGTCTGTCCTGGGATTGGCGCGTCCTCGGGCTCCTGACCTCAGGGCTGCCGGGGGGTCTCGAGGCACAGAGCTGCTGTCGCTGTGCTGTGCCCTGGGCCGGCATTGCTGGGAGTGGGCTGCTCACTGCTCGCTGAGCTGCTGGCCTCGGTTGCTCCCGCAG
Seq C2 exon
GGTGGACGTGGTCCATCTCGCCCTGTACAACCTGGGCGTGCAGAGCAAGAAGAAGTACTTCGACTTCGAGGAGATCTTGGCCTTCGTGAACCACCACTGGGACCCTCTGCAGCTCGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001595:ENSGALT00000002421:8
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(22.6=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTATGTGTTTTTCTGCTCTGTGT
R:
CTTCCCGAGCTGCAGAGGG
Band lengths:
190-809
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]