RnoINT0110302 @ rn6
Intron Retention
Gene
ENSRNOG00000000480 | Phf1
Description
PHD finger protein 1 [Source:RGD Symbol;Acc:1303205]
Coordinates
chr20:5530003-5530270:+
Coord C1 exon
chr20:5530003-5530070
Coord A exon
chr20:5530071-5530165
Coord C2 exon
chr20:5530166-5530270
Length
95 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
GGATTTCCCCCTTGTCCCAGTTT
3' ss Score
5.06
Exon sequences
Seq C1 exon
CTTTCAGACACTCCCAAAGGAGAACGCTCTTCCAAGCTCCTTTCTGCCCTTAACAGCCACAAGGACCG
Seq A exon
GTGAGTCGGAAGAGGGAGGCTGAGGGAGTGATGTGCCAGCCTGGATGAGGGGACTTGGCAACTGCCCTGATCTGCGGATTTCCCCCTTGTCCCAG
Seq C2 exon
TTTCATTTCAGGGAGGGAGATTAAAAAGAGGAAATGCCTTTTTGGTCTCCATGCTCGGACCCCTCCTCCTGTGGAGCTTCTCACTGGAGATGGATCCCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000480:ENSRNOT00000059548:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.361
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:
CTTTCAGACACTCCCAAAGGA
R:
CCAGTGAGAAGCTCCACAGGA
Band lengths:
155-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]