DreINT0113218 @ danRer10
Intron Retention
Gene
ENSDARG00000057439 | phf1
Description
PHD finger protein 1 [Source:ZFIN;Acc:ZDB-GENE-100922-277]
Coordinates
chr16:45458873-45459159:+
Coord C1 exon
chr16:45458873-45458951
Coord A exon
chr16:45458952-45459077
Coord C2 exon
chr16:45459078-45459159
Length
126 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
3' ss Seq
GGGATGTGTTCGTCTTGCAGGTG
3' ss Score
9.94
Exon sequences
Seq C1 exon
GATGGGGGGAGTCAGTGAAGGAGAGGATGTTTTGGCCAGGTGGAGCGATGGACTTTTATATCTCGGCAATGTCAAACGA
Seq A exon
GTAAGTTTCTCCAAGTTTGTTCGGAGGAGGGAGCCGGTGGAGAGGATGAAAAAGCAAGTTTTGAAAACTGCGACTTGTACTTGTGAAAATGAGTGTGGTGTTGTTTGGGATGTGTTCGTCTTGCAG
Seq C2 exon
GTGGACAGTGTCAAGCAGTGCTGTTTGATCAGATTTGAGGATAACTCTGAATTCTGGGTCCTCAGGAAAGACATCCACTCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057439:ENSDART00000134471:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
GGGGAGTCAGTGAAGGAGAGG
R:
CGAGTGGATGTCTTTCCTGAGG
Band lengths:
155-281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]