RnoINT0110769 @ rn6
Intron Retention
Gene
ENSRNOG00000016794 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:RGD Symbol;Acc:1310377]
Coordinates
chr3:8839164-8839412:+
Coord C1 exon
chr3:8839164-8839239
Coord A exon
chr3:8839240-8839364
Coord C2 exon
chr3:8839365-8839412
Length
125 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGG
5' ss Score
5.28
3' ss Seq
GTCTGTTTTCTGTACCACAGGAA
3' ss Score
9.39
Exon sequences
Seq C1 exon
GGCAACACGGACTACTTCTTGAGCAGTGGTGACAAGATCAGATTCTTCTTTGAAAAAGGCGTTTTTGATGAGAAAG
Seq A exon
GTTTGGAGGCATGACGGTTGGAGGGACTGGGTCAGGGTGGCTAAGTCCTGGGGCTGGGAGGCAGCTGAGACCTGAAGGAAGCTGGATTCCGGATCTTCTGCCTTTGTCTGTTTTCTGTACCACAG
Seq C2 exon
GAAATTTCTTGGTTCCTCCAGAGAAATCTATCAACAAAATTGGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016794:ENSRNOT00000022552:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(10.1=100)
A:
NA
C2:
PF057218=PhyH=FE(16.5=100)
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:
GGCAACACGGACTACTTCTTGA
R:
TGGCCAATTTTGTTGATAGATTTCT
Band lengths:
122-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]