RnoINT0110303 @ rn6
Intron Retention
Gene
ENSRNOG00000000480 | Phf1
Description
PHD finger protein 1 [Source:RGD Symbol;Acc:1303205]
Coordinates
chr20:5530166-5530560:+
Coord C1 exon
chr20:5530166-5530270
Coord A exon
chr20:5530271-5530391
Coord C2 exon
chr20:5530392-5530560
Length
121 bp
Sequences
Splice sites
5' ss Seq
CAGGTCACT
5' ss Score
3.41
3' ss Seq
GATAAGGAGGCCTCTTACAGCTT
3' ss Score
-3.87
Exon sequences
Seq C1 exon
TTTCATTTCAGGGAGGGAGATTAAAAAGAGGAAATGCCTTTTTGGTCTCCATGCTCGGACCCCTCCTCCTGTGGAGCTTCTCACTGGAGATGGATCCCCCACCAG
Seq A exon
GTCACTGGTCCAGGGGGGATGGGGGAAATTCTCAAGGATCTGTTTGGAGGGTACATGTACAGAAAATGGGGGTCTTGGGGTGCCTGGGAGGGGGCTGGGGGGATAAGGAGGCCTCTTACAG
Seq C2 exon
CTTCCCTTCAGGGCAGGGCCCTGGGGGAGGGGTCTCACGTCCCCTGGGGAAACGCCGGAAGTCGGAGCCAGAACCCTTGAGGAGGAGGCAGAAGGGGAAAGTGGAGGAACTGGGGCCACCCACAGCAGCTCACAGTCGGCATGGGTCCCAGGAGCAGAGGGCCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000480:ENSRNOT00000059548:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGGAGGGAGATTAAAAAGAGGA
R:
CTCTGCTCCTGGGACCCATG
Band lengths:
257-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]