RnoINT0110356 @ rn6
Intron Retention
Gene
ENSRNOG00000018874 | Phf19
Description
PHD finger protein 19 [Source:RGD Symbol;Acc:1310390]
Coordinates
chr3:13975292-13975975:-
Coord C1 exon
chr3:13975790-13975975
Coord A exon
chr3:13975374-13975789
Coord C2 exon
chr3:13975292-13975373
Length
416 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
TTCTTCTCTCTTTGCCTCAGGTC
3' ss Score
11.31
Exon sequences
Seq C1 exon
AAGCTGATGGAGACGCAAGCTCTGGAACCAGGGACTCAGGAAGCCTTTGGTGCCACCAGCCCTAACAAGGGGGCCCCGTCTAAGACCAAAAAGAACTTCAAAGACTTGATGTCTAAGGTGACAGAGGGACAGTTTGTGCTATGCCGGTGGACTGACGGGCTATACTACCTTGGCAAGATCAAGCGG
Seq A exon
GTAAGTCTGCTCTGGTCCTTGGGCCCAGGCTCCTGTGTTTTTCTGCTCATCTCCTTTTACCCCTCATGCCTAAAGCTGAAAGTGGAAGGGACCAGAGCTTGGCTTTGCAGGCTCCAAGTCCTCAGGCACAATGTGGCCCAGCAGGTTCTTCAAAGAACTTAAGCAAGCACCAGACTGGGCAGGGCATGGATGACTCTCTGACCTGCTCTTCGATCCTTAAAAGCATCCCCATTAAGTCGTCCCCTTGTTCCTAAAGGCCATACTCTGAGGTGGGAAACACAGCTCTCCTTCTGGCCTGTCTTCTGAAGCACAAGGCCAAGAGAGACAGAGGAAGACTGAGACCCAGCTCCCCCCTGCTGCTCCCTCCTGCTGCTCCCCCCTGCTGCTCCTCCACATTTCTTCTCTCTTTGCCTCAG
Seq C2 exon
GTCAGCAGTCCTAAGCAAAGCTGCCTCGTGACTTTCGAAGACAATTCCAAATACTGGGTCCTTTGGAAGGACATCCAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018874:ENSRNOT00000025528:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.433 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(4.3=7.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGATGGAGACGCAAGCTCTG
R:
CATGCTGGATGTCCTTCCAAAG
Band lengths:
265-681
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]