GgaINT0063023 @ galGal4
Intron Retention
Gene
ENSGALG00000001900 | PHF24
Description
PHD finger protein 24 [Source:HGNC Symbol;Acc:HGNC:29180]
Coordinates
chrZ:8365882-8366305:+
Coord C1 exon
chrZ:8365882-8366067
Coord A exon
chrZ:8366068-8366226
Coord C2 exon
chrZ:8366227-8366305
Length
159 bp
Sequences
Splice sites
5' ss Seq
TGCGTGAGT
5' ss Score
7.55
3' ss Seq
CTCCCTGCCTTCCCCTCTAGGAC
3' ss Score
13.7
Exon sequences
Seq C1 exon
GTCCTCAATGATGAGATGTGCGAGATCTGTGAAGTGTGGACAGCCGAGAGCCTCTTCCCCTGTCGCGTCTGCAACCGGGTGTTCCACGATGGCTGCCTGCGCCGCATGGGCTACCTGCAGAATGATAGCGCTGTGGAGGTGACGGAGACTGCACATACCGAGACAGGCTGGAGCTGCTACTACTGC
Seq A exon
GTGAGTGCCCACTAAGGTCCAATGTTGTGACCTGCTCCAGGGCAATGGGGCTTCTACAGTTCCTCAGCTCCCATCACCAATACTAATGAGGAGCCACCATGGGGCTCTCTAACCACTGCCACCACTGGATGCTAACACTCTCCCTGCCTTCCCCTCTAG
Seq C2 exon
GACAACCTCAACCTCCTGCTGACAGAGGAGGAGATGTACAGCTTGATGGAGACCTTGCGGCAGTGCAAGATCATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001900:ENSGALT00000002939:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF137711=zf-HC5HC2H=FE(65.6=100),PF0013017=C1_1=PD(89.1=66.1)
A:
NA
C2:
PF137711=zf-HC5HC2H=PD(3.2=11.1)
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:
TGCGAGATCTGTGAAGTGTGG
R:
CTGGGATGATCTTGCACTGCC
Band lengths:
247-406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]