GgaINT0125004 @ galGal3
Intron Retention
Gene
ENSGALG00000001595 | PHF19
Description
NA
Coordinates
chr17:8995028-8995306:-
Coord C1 exon
chr17:8995225-8995306
Coord A exon
chr17:8995123-8995224
Coord C2 exon
chr17:8995028-8995122
Length
102 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CCTCTTTCTCCGTCCCGCAGCCG
3' ss Score
10.95
Exon sequences
Seq C1 exon
GTGAGCGGCTCCAAGCAGAGCTGCCTGGTGACGTTTGAGGACAACTCCAAGTACTGGGTCCTCTGGAAGGACATCCAGCATG
Seq A exon
GTGAGCGCCACCCCGGCGTGCCCTGCCCTGCTCACCGCCCCCCGGGAGCCCATGTGCCGTGGGCAGCACTGTGGGGCCATCACCTCTTTCTCCGTCCCGCAG
Seq C2 exon
CCGGCGTCCCCGGGGAGGAACCCAAGTGCAACATCTGCCTGGAGAAGACATCAAGGCCCAGGAATGAAATCCTCATCTGCGGGAAATGCGGTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001595:ENSGALT00000002421:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF150571=DUF4537=FE(45.8=100),PF0013017=C1_1=PU(5.8=10.7)
A:
NA
C2:
PF150571=DUF4537=PD(18.6=34.4),PF144461=Prok-RING_1=PU(65.9=84.4),PF0013017=C1_1=FE(59.6=100),PF036609=PHF5=PU(43.3=90.6),PF0062824=PHD=PU(42.6=71.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGCTGCCTGGTGACGTT
R:
TAAACCGCATTTCCCGCAGAT
Band lengths:
162-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]