DreINT0113294 @ danRer10
Intron Retention
Gene
ENSDARG00000078050 | phf19
Description
PHD finger protein 19 [Source:ZFIN;Acc:ZDB-GENE-081105-128]
Coordinates
chr8:12342145-12342908:-
Coord C1 exon
chr8:12342840-12342908
Coord A exon
chr8:12342266-12342839
Coord C2 exon
chr8:12342145-12342265
Length
574 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAT
5' ss Score
6.41
3' ss Seq
CTTTTAACTTTTTTTGGCAGGGT
3' ss Score
7.95
Exon sequences
Seq C1 exon
GTTTTACTTGTTCATTTGTGCGGTGTGCAATAAAGGAGTGGAATACATCAAGCGGCTGGCTCTCAGATG
Seq A exon
GTAAATGGCAGCTCTTCTTTCCCCCTCGCGAGTGATTGCGCCAAGATCCGTGTCAGAATTATGTAGTCAAAGTGTTGGATGTGATTGATGTGGACTGGAGCCCTCCATCCGGAGCTTTTTCTCTGGAGCGCCCAGCTATTTCAGAAAGCAAAGAGAGGGTGTCTTTTTTTTTCGCCGTAGAGTTTTCTGGACATTGATTCTTGCTTTTTGTCCCAAATGAGGAATAGCCATTTGAAGCGAAGATTTGGTGCTGAGAGGATTTTTTTATGATAGCAGGGGATTACTCTTGAAATACAGTGAGCTGGATGTGTTGGATATTTAGGTATGAAGCCAGTCTCGGTTGGGATTTAAGCTTTATCCTTTTTAAAAAAAAGTCTAGTGTGTTAAAATGGACCTTGCCTTGTGAACAAAAGCACACTCTATTTAACATTTTAGCATGTGAAATTTCATGCAGATTTAGGGGGTGTCATATGATCTAAGAGCTTTTCCGCTTTAGGGCTAAACATAGTCGACTACATCTGAATTAAAAGTGAATTTTTCATGAGATTTTTACACTTTTAACTTTTTTTGGCAG
Seq C2 exon
GGTGGATGTGGTCCATCTTGCCCTCTACAACCTGGGAGTCCAAAGTAAGAAGAAATACTTTGAACTGGAGGAGATCGTAGCATTCATCAACAACAACTGGGATCGTTTCCAGATGGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078050:ENSDART00000142150:8
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=PD(22.6=50.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTACTTGTTCATTTGTGCGGTG
R:
CTTGCCCATCTGGAAACGATC
Band lengths:
190-764
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]