RnoINT0110360 @ rn6
Intron Retention
Gene
ENSRNOG00000018874 | Phf19
Description
PHD finger protein 19 [Source:RGD Symbol;Acc:1310390]
Coordinates
chr3:13967582-13969451:-
Coord C1 exon
chr3:13969303-13969451
Coord A exon
chr3:13967678-13969302
Coord C2 exon
chr3:13967582-13967677
Length
1625 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGG
5' ss Score
5.42
3' ss Seq
TAGCTCTTCTGTGCCTCCAGGTG
3' ss Score
8.77
Exon sequences
Seq C1 exon
AAAGGCGGTGCGCTGAAGAAAGGCGCCATCGCCAAGACGCTGCAGGCAGTGAAAATGGTGCTGTCCTACCAGCCTGAGGAGCTCGATTGGGATTCGCCCCATCGCACCAACCAGCAGCAATGCTACTGCTACTGCGGCGGGCCTGGAGA
Seq A exon
GTAAGGCACCAGAGCGGGACACGTGTTGACTGCTGGGCGGGACTGACAGGCTCCCAGGGAACCCCATCTCGGGGGCGGGGCCTGAGTGACAGCCTGAAGGGCGGGGTGAGGCTTGACTGGCAGGCTCTGGAGGCGGGACCTGCGCCCTCCGAGTGACAGCTTGGGGGCGGGGCCTGAGCATCAGACTCTGGAGGGGCTGACCCAGAGTGACAGCTGGGCTGAGGGATATGAGTGTCTGGCGGCGGGACCTGGAGGGGCGAACCTGGAACCATGGGGCGGGGCCTTCGTGTCACGCTGTAGAGGTGGACCAAGAGAGACTTGACAGGGGGCGGGGTCTGTTAGGTTATGAAGGCGGGATCTAGAGGGGCGGACCCAGAGTGACAGCAGCGGGGCGGGGCCTCAGTGTCAGGCCTTGGAGGCGTGTCTTGGATGGGCAAATCCAGAGTGCTCACTGGGGGCTAGGTCTAGGGTAGACGGGCCTAAAGTGACAGTCGCGAGGGCGGGGCCTAGGTGTCAGGCCACGGAAGCGGGATCTGGAGGGGCGGATCCTCGATGTCATTTTAGGGAGGGCAGATTGTTTAATGTTTAATTTTAATGTCGCTTTGCAGGAGGGAAACCCAGAGTAGTCTTTGGGGAAACCAAGCTTTGAGGGGCGGGCCCAGGGGGTAGGATGGCTGTCATAAGGCAGGTCTGGACCAATGGGAGCCAGGAGAGTTACCTAGGGATCTTAAAGGAAGGGTGCTGAAAGTAAGCTCAGAGTGAGAACCTGTGCAGGTGCAATGGAGAGTAGAAGGCAGAGTGCTTTTCTTGGAGTCACGTGAGAAAGGAGGAAGTAATGAAACAGCTAAAAAGCCTAGGCCTGACAGATGACCATAACCTGGCACAGCACTTTGCCAGCTCTGCCTCCCCTGGTTCACAGTTCACTTACTAGTTTTTCCTTTGTGTGGCTGTGAGCATCAGTAACTATATAAAAGCTCACATGGGCTGGGAATTGGTAATCAGCTGGTGGTGGTAGAAGAGATTCTTGTCTTGCTGTGGGGCCAGAATCTGCTCTAGCTTGCCAACCTGGGCCTCCGAGGCCAATTAAACCTGCTCCTTTGGGCTGTCTGCATAGAGGCAGGATCTCTATCCTCAGTAGATAGCAGACTGATCCTTCCCGTCCTGGGTTTTAGAGTATCTGGAGGTGATGCTTGTGATCCAGCTAGCCTCTGACTATGCCATTTGAACTACTTCATCTCTAAAATGAGCTGTTACCTCAATTACCCATGAGCACCCTGGTGTGCTAGGAGGCATTTTGAATGATAATGTAAAACAGTATACAGAAACCTATATGACATTAGTAAGTCGGTGCTTCTCAGTGTTTAGTGAGCAGTTGTTAGAACACACACATGCACACGCATGCACGCATGTGCACGCGTGCGCCTCCAAAAGGCTCCTCTGAATAACCAAGCCAGATCTGAAGCCAACCAGAGAAACTGCCTATTAAACCTGTACTTTGAGGCTGGGGCCACTGGTGTGCTTTTCTAGCTGTGGCCCACAGTCCTCTTCCCTCACCTGTAGAGGCTGGTGAGTACGTTGCTGAGCCTGACTGTGATGTGGCTGACCTAGCTCTTCTGTGCCTCCAG
Seq C2 exon
GTGGTACTTACGGATGCTACAGTGCTACCGGTGTAGGCAGTGGTTCCATGAAGCCTGTACACAGTGCCTAAGTGAGCCTATGGTGTTTGGAGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018874:ENSRNOT00000025528:6
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:
PF0062824=PHD=PU(15.1=16.0)
A:
NA
C2:
PF0062824=PHD=FE(60.4=100)
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:
CGGTGCGCTGAAGAAAGGC
R:
CGGTCTCCAAACACCATAGGC
Band lengths:
240-1865
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]