RnoINT0110775 @ rn6
Intron Retention
Gene
ENSRNOG00000016794 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:RGD Symbol;Acc:1310377]
Coordinates
chr3:8844177-8845166:+
Coord C1 exon
chr3:8844177-8844293
Coord A exon
chr3:8844294-8845039
Coord C2 exon
chr3:8845040-8845166
Length
746 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
ACAGTGTGGTATTCCCCAAGGGG
3' ss Score
3.64
Exon sequences
Seq C1 exon
GTGGGGTGTCAAGAAGGATGATCCGAGCCCCTTCGGACTCTGGGCCTGGCACCAGCTTCCTCGGGTCGGAGCCAGCCTGGGATAACAACCTCTTTGTGCCTTTGCCAGTGAGGAGAG
Seq A exon
GTAGGTGAGGTGCAGAGCACAGGAAGGCAGGTGGCCATGGTTAGAGCTCTGTGTTTGCTCCACTCCCTGCATACAAAAGGCTCCCTGTGGTGCCTGCAGTCTGAGGGCCTTGAAATTGTAGAAAGGATGGTGGTGGCACTGGTATGGGGCTGGATCATAGTCAGCAAGCAGTGTGCTTCCAGCAGGCTCGTTAAGGTCAGACTAAAGTCCTTGACGGTCATTTCTTGAAGTAGATGATTGCCCCTCTGACTCTCAGAGGTCCCAGGCAATTAATGCAGGACTTTTGCAGGGAACGTGTGAGGTACGCACGTGCTCCATGTGTGGGCAGGTAATGCCTGGTTTTCCTTATGGCAAAGGGATACCAGATGCCAACTCTGTCTGGGGAAGGGGACCCCCCTCCACCCCTCATATGCCTGTGTGTAAATGGTTTCCTGTCTGCCTCTGCCTTCCAAGTGCTGGGATTGATTAAAGACTTGCACTGCCACACCCGGCCGGGGAAAGCCCTTTCATAAGGCTTCCCAAGGAGGGTCACAGTGGAGAAGACATGATGCTAGGGGACTGCTGTCTGTCTAACAGCTTGGCCTCAGACCTGGAGCACGTGTGATGACAGCCTGCGTTTCTAAGGATAGGAACGGACAAGTTCTCCCTTTGTGGAAGTAGGGCTGTATTCTTTATTCCCTTGGGAAGAAGACTGCTTGCTATGGGGTTGGTGGTGACTTGCTGGTGACAGTGTGGTATTCCCCAAG
Seq C2 exon
GGGGTCTGGTCCTGATCCACGGAGAAGTGGTGCACAAGAGTGAGCAGAACCTTTCCGACCACTCACGCCAGGCCTACACTTTCCACCTCATGGAGGCCGCCGGCACTGTCTGGAGCCCAGGGAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016794:ENSRNOT00000022552:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(15.7=100)
A:
NA
C2:
PF057218=PhyH=PD(9.7=55.8)
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:
GGGTGTCAAGAAGGATGATCCG
R:
TGGGCTCCAGACAGTGCC
Band lengths:
233-979
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]