RnoINT0110352 @ rn6
Intron Retention
Gene
ENSRNOG00000018874 | Phf19
Description
PHD finger protein 19 [Source:RGD Symbol;Acc:1310390]
Coordinates
chr3:13962401-13963167:-
Coord C1 exon
chr3:13963006-13963167
Coord A exon
chr3:13962489-13963005
Coord C2 exon
chr3:13962401-13962488
Length
517 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
TCCCTTTTCTGTCTCCACAGTTT
3' ss Score
11.68
Exon sequences
Seq C1 exon
GTTCCTGTGTGGCAAGGAGATTAAGAAGAAGAAATGCATCTTCCGACTGCGCGTCCGTGTCCCGCCCGCCCCTCCAGGAAAACTGCTTCCGGACAGGGCACAGATGCCAAGTGACAAAGGGACCTTTGAGCTGCTTCGTAAGAGAGGAAAGAGCAAGCCTGG
Seq A exon
GTCAGTGCTGGTGGGGGACAGTGGCTGCAGCGAGCTTGGGTTCTCTGCCTAAGCTCCCACCTCCCGCAGATGGTAGAAGCTATGTGGTGGGCTCAGGCAGTGTGGCAGCATCCCTGTAAACCCGGAGTCCTAGACCCAGCAGGGTCCAGCTATAGGCACTCTGGGAGTGCTAGTGAGAAGCTCTGGGGTCCCTCTCACCACAGGCCCCTCACTTCCTAGCTCCAGGAAGACTGATGCTGGGACCCAGCCCTGCTGCACTAGGACTGGGCAGCGGCAGCAGCAGAGCATGAGGGAAGTGTCAAGGGCTGGGCGAGCCTCGTCTCTAGGGGCACTGGGGCAAGGAGGCACCTCTCATTTTTCTACTCTCTAAAGCCCCTCCACATTCACTGCTCCCGGAGGATGGCCTCCTCCCAGGCTCACTCTACCCTGCCCAAACCCTCCTGATCCCATACTGCCGCTGCCCTCAGCTCTGACTGGGGCTCTGACAGGCCGCCCTCTCCCTTTTCTGTCTCCACAG
Seq C2 exon
TTTGTTGCCTCAGGAATCCCAGCAGCAGAAAAGGCGAGTTTATAGAAGAAAAAGATCAAAGTTTTTGCTGGAAGATGCTATTCCCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018874:ENSRNOT00000025528:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.291 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTTCCTGTGTGGCAAGGAGAT
R:
CTGGGAATAGCATCTTCCAGCA
Band lengths:
249-766
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]