RnoINT0110310 @ rn6
Intron Retention
Gene
ENSRNOG00000000480 | Phf1
Description
PHD finger protein 1 [Source:RGD Symbol;Acc:1303205]
Coordinates
chr20:5528934-5529274:+
Coord C1 exon
chr20:5528934-5529034
Coord A exon
chr20:5529035-5529125
Coord C2 exon
chr20:5529126-5529274
Length
91 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TTCCCTCTGTTCCTCTGCAGAGG
3' ss Score
11.58
Exon sequences
Seq C1 exon
CCTATCACCAGGACTGTCACGTCCCCAGGGCCCCAGCCCCTGGAGAAGGAGAGGGCAGCTCCTGGGTCTGCCGCCAGTGTGTCTTTGCGATTGCCACAAAG
Seq A exon
GTAAAGGCACCTCTCTGCCTGCTTGTGTGGGAGCCTCCCGTGACCTCTCCTCCTTCCCTGCCCTCTGAGGCTTCCCTCTGTTCCTCTGCAG
Seq C2 exon
AGGGGAGGTGCCCTGAAGAAGGGTCCCTATGCCCGGGCCATGCTGGGCATGAAACTCTCCCTGCCGTACGGTCTGAAAGGGCTGGACTGGGACGCCGGACATCTGAGCAACAGGCAGCAGAGCTACTGTTACTGCGGGGGCCCGGGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000480:ENSRNOT00000059548:5
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:
PF0013017=C1_1=PD(29.3=35.3),PF0062824=PHD=PD(53.7=85.3)
A:
NA
C2:
PF0062824=PHD=PU(14.5=16.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGTGTCTTTGCGATTGC
R:
CCCCGCAGTAACAGTAGCTCT
Band lengths:
167-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]