RnoINT0110358 @ rn6
Intron Retention
Gene
ENSRNOG00000018874 | Phf19
Description
PHD finger protein 19 [Source:RGD Symbol;Acc:1310390]
Coordinates
chr3:13970035-13970683:-
Coord C1 exon
chr3:13970588-13970683
Coord A exon
chr3:13970136-13970587
Coord C2 exon
chr3:13970035-13970135
Length
452 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CATCCCCTCCTTTGCCCCAGGTT
3' ss Score
10.02
Exon sequences
Seq C1 exon
CTGGTGTTCCAGGAGAGGAGCCCAAGTGTGATGTCTGCATGGGGAAGACTTCAGGACCGATGAACGAGATCCTCATCTGTGGGAAGTGTGGCCTGG
Seq A exon
GTGAGTGGGTGAATAGCACACTGTGAAAGGCCCTGCCTTGTGGGCCCCTCCCACTCGGCGGGCCCCTCCCACTNCGGTGGGCCCCTCCCATTTTGTGGGCCCTCACCGCACTTGCTGAGGTCCCAGCTAGCTTCCTATCTATCCTATTCCTTCTATCCCTGACATGTCTCCTCCTGCTTTGGGGAAAGGTGACCAAAAGCAATGGGAAATGTAGTTTGTGACCCTCCTAGGCAGAGAGACAGGTGCTGAAGCTCATTCTTGGTGCCTCTTACAGTGGCCAGTACCTTCTTTTTGTGCCTCGCTGGCTGGGTACCACCAGCCAGTACCCTGAAAGCTGGCAGGCAGAGTTCCCTAGGGCTTGCCATAGCTCGACTAGCCTCGCTGCCTTTGGCCAACTGGCCTTGGGCCACTGCTCCCTTGTGACTGATTCACCATCCCCTCCTTTGCCCCAG
Seq C2 exon
GTTACCACCAACAGTGCCACATCCCCATAGCAGTCGATGCCAACTGGCCCCTCCTCACTCACTGGTTCTGCCGACGCTGCATTTTCGCACTGGCTGTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018874:ENSRNOT00000025528:4
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=FE(69.6=100),PF144461=Prok-RING_1=PU(71.8=84.8),PF0062824=PHD=PU(44.4=72.7)
A:
NA
C2:
PF0013017=C1_1=PD(23.9=32.4),PF144461=Prok-RING_1=PD(25.6=29.4),PF0062824=PHD=PD(53.7=85.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGTTCCAGGAGAGGAGC
R:
CACAGCCAGTGCGAAAATGC
Band lengths:
193-645
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]