GgaINT0125003 @ galGal3
Intron Retention
Gene
ENSGALG00000001595 | PHF19
Description
NA
Coordinates
chr17:8995225-8995852:-
Coord C1 exon
chr17:8995686-8995852
Coord A exon
chr17:8995307-8995685
Coord C2 exon
chr17:8995225-8995306
Length
379 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAG
5' ss Score
5.2
3' ss Seq
TTTGTGCTCTGTCCCTGCAGGTG
3' ss Score
13.9
Exon sequences
Seq C1 exon
CGTCCCCGCAGGCTCTGCTCATGGAGAACGAGACGCTGAACTCCATCAGCCGGGATGTGCGCGGGGCCGCCGGGTGCAGGGGCAGCAGCTGCAGGGAGCTGAGCGAGGGGCAGTACGTGCTGTGCCGCTGGACCGATGGGCTGTACTACCTGGGGAAGATCAAAAGG
Seq A exon
GTAAAGAGGGCGTCCGGAAGGGTAAATGGGAGCCCCAAAGGGTAAGAAGGCGTCCAGGTAGCTAAGGTGGGCATCTAGAAGGGTAAAGTTGGCGCACGGAAGGGTAAAGAGGGAATTCAGAAGGGTAAGAGGGCATCCAGAGCGCACCTGGGGCAGGTGCCGTTCCCTGGGTCAGCTCACGGCGTGTTGGCCTGAGCTGTGAAGCGACTGTGGTCTTTGGAGTGATTGGGATCGATGTCCTAACTGGGTATCCGCCCTGGAACCCGCCTTCCTGGAGCTCTTGGAGCTCTGAGAGGTGGGGAAAATGGCACGAGGGAAAGAGGAGAGTGCAGGCAATGGGAGAAGGCATTCATCGGTTCTTTGTGCTCTGTCCCTGCAG
Seq C2 exon
GTGAGCGGCTCCAAGCAGAGCTGCCTGGTGACGTTTGAGGACAACTCCAAGTACTGGGTCCTCTGGAAGGACATCCAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001595:ENSGALT00000002421:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF150571=DUF4537=PU(32.2=38.8)
A:
NA
C2:
PF150571=DUF4537=FE(45.8=100),PF0013017=C1_1=PU(5.8=10.7)
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:
GCTCTGCTCATGGAGAACGAG
R:
CATGCTGGATGTCCTTCCA
Band lengths:
238-617
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]