RnoINT0110359 @ rn6
Intron Retention
Gene
ENSRNOG00000018874 | Phf19
Description
PHD finger protein 19 [Source:RGD Symbol;Acc:1310390]
Coordinates
chr3:13969303-13970135:-
Coord C1 exon
chr3:13970035-13970135
Coord A exon
chr3:13969452-13970034
Coord C2 exon
chr3:13969303-13969451
Length
583 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
TGGGTCCTATCTCCCCCTAGAAA
3' ss Score
10.52
Exon sequences
Seq C1 exon
GTTACCACCAACAGTGCCACATCCCCATAGCAGTCGATGCCAACTGGCCCCTCCTCACTCACTGGTTCTGCCGACGCTGCATTTTCGCACTGGCTGTGAGG
Seq A exon
GTGAGCATCTCCCAACCCCTTTCCCCAGCCCTTGCCCTCCTGTCTTCCAACTGGGCAGACCAGAGCCCCACGAGACTCAGGCCTGAGACGACATCGCTGATGCTGTTCTCTAGGCAGAAGGGCTCCACTTGGACTTTGGAGACACAGGGTGCTGTCTTAGGCTAGATCTCAGAACCTCTCTAAACCTCAAGTGTTCCCAACCATAAAATGGACCCAGTTTTGTGTCAGTAGGAGGCCCCTAACAAAGGGCCGTTTGCTATTAAAAGACAACGTTATTATGTACCTCCCCCTTACACGTGGTATTTTTTTTTACTTCTTTTTTTAAAAAGCTCTTAAGATAAATATATATTCTTTCACAGATTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTTGTCCTTTTTACAACTAATGCTATCAATGAATATCACTAAAGGAAACAGGATGGGTTTAGGATTGGTGAGAAAAAGCTCGTTTTTCTGATGTTCATAAAATGTCTGGGTCTCCCCGAACCCTGGCAGCATTTCTCCTGATAGCTGTGTGCTGACAGGTGTAGTTGTTGACCTGGGTCCTATCTCCCCCTAG
Seq C2 exon
AAAGGCGGTGCGCTGAAGAAAGGCGCCATCGCCAAGACGCTGCAGGCAGTGAAAATGGTGCTGTCCTACCAGCCTGAGGAGCTCGATTGGGATTCGCCCCATCGCACCAACCAGCAGCAATGCTACTGCTACTGCGGCGGGCCTGGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018874:ENSRNOT00000025528:5
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(23.9=32.4),PF144461=Prok-RING_1=PD(25.6=29.4),PF0062824=PHD=PD(53.7=85.3)
A:
NA
C2:
PF0062824=PHD=PU(15.1=16.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACCACCAACAGTGCCACA
R:
CCGCAGTAGCAGTAGCATTGC
Band lengths:
238-821
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]