RnoINT0110766 @ rn6
Intron Retention
Gene
ENSRNOG00000016794 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:RGD Symbol;Acc:1310377]
Coordinates
chr3:8832740-8835963:+
Coord C1 exon
chr3:8832740-8832813
Coord A exon
chr3:8832814-8835804
Coord C2 exon
chr3:8835805-8835963
Length
2991 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
GAGTCTTGCTCCTGTTGCAGTTC
3' ss Score
6.16
Exon sequences
Seq C1 exon
GAGCCATCGAGCTGAGACAGCAGAGTCCTGCAGCATTGCCCATGGCCTGCCTGAGTCCCTCACAACTCAAGAAG
Seq A exon
GTAGGGGCCTGTGTTTTGGAGGGTGCAGACCTCTAGTGACCCTTGAACTACCTCTGACATTTCACAGAGAGAAGGCTCCCTGGGTATAAACCCTAATTTCTGTAAACATAGCCTGAGAGGGCCAGGTCACAACGCTGCCCCCCACACCACCACCCCACGTCCTATACGGTGGGGATTGGGGGATAAGAGGTGGAGAAACCACAGTTCAGATTAACCAGTCCAGCCAGCCCCAGGGGCCTGTTGATGAAGGCCTGGATGGGGACAGGCCAAGAGATAGGTCAGTGCATTAGGAAAGTCTACCATATAGGGGTTGCACTACGCACACCTTGAAATAACCACCCACGATTTCATATGGCAGGACTGTTACTGTATTAGATCTAGCCTTAGGATCTTCCTTTCAAAGTCCCCCCTGGAGCTGTGGTTGTGGCTTAGCAGTTGAGTGCTTGCTGGAGGCTCTGAGAGTGATCCCAACATTCACGACACACACAAACACACTGCACATACACAAACACACACACTATACACCATACACACACAAACACATACTGTACATACACAAACATACACACTACACATCATACATACACACCAACACACATATTCACATACGTACACATACTACACAGCATATACACACACTATACAAACACACTGCACACACACTACTGTAATACACAAACACATATACACACTACATACCCCACACACACAACACATACACACAAACACACTGCACATATCACATTATACAAACATATACATACAAACAGACTACACACACACCAACATACATACACACACCACCAATATCACCACCATACACACATATATCATGCATATACACACACATACACAGAGACACTCACACCACACAAACGCCCCACGTCACACACACATCCTATACAAATGCACACACATGTACATACCACACAAATACATACCCGCTATACTCACATACAAACATGCATATGCACATACTACACACGCATATAAACACCATACACAGATACACATCACACAAACACACACATAGAGCCCCCACACACAAATGCACCCATGCACAGATACCACACAGACACACACCACCCAAACACACACACACACACACACACACACACACACACACACACGCACACACACACACTCTCACACAGACCTACTCTCTTCTGACACCTGCCACTCATGCCACAGTTCTCAAATCTGTCTGTGGCTAAATATGTCCTGGAAGTCAGTCTTTCTTTCTGTCTCACAGGCTATCCAGGGACAAAGCCCCAGCCAGTATTTTTCTGTATGGTTTTTGCTGAGCTTTTGTTCATTTTTGCAATTTTGGGAGTGGAGGGCCTCCCACGTGTTAACCCCGAGTGCTTGTTTGCTGCTGTTGGTTTGCTCTGTTTTGGATTTGTGAGAGATGGTCTTACTATGTATCCCTGTCTGGTCTAGAACTCAATCTAAAAAGCAGGCTGCCCTCCAACTCACAGAGCTCTGACCGCCTCTGCTTCCTACATGCTGAAGTTAAAGGTGTGGGTCGCCATGCCAGGCCACACTTAGAGCCTTGCTCTCTGCTCCCTGCTGTGGTGATTTTCTTTGACTTCAGTGCTGAGGACAGAAGCCAGGCCGTGTGTACATGCTAGGCAAGCAGTCTGCTTCTGAGAGCCGTCCTGGTGTGCTAGCCTTGGGATAAAAAGCTTTGGGGCGACATCAGAATAAGCCACCTGTGCTCACACCCCGTAGCCTCCCTCTCCCCGTCTAGCCAGGGGGATGCTGTGATGGGGACTTTCTAACCTTTCCTCCGCATGCTAGTGGTGACTCAGGCATCCTGCCTGCCCACACTAAATAACACAGTGGAAATAAATTTTCCAATGGATGGATTTAGGGTTTCAGGACGAGCATGAGCCCATCCAGCCTGCCTTCTGTCTGCTCCTCTGGCCCTCCCCTCACCCTGGGCTCCAGCCCTTCCCAATTTCTCACAGTCATCCAGCGCCTACAGGCTTTGTAAATCCTGTTCTGTCTTCAATGGCCTTCCCTATCTCTTTGCTTCCCAGTGTTCTGCACTTTCCTCTAAACCCACTTCCTCCAAGCTGCCCTTTGACCCTTCACTTCGTTAGATTCTTTGCTTTTCATTCTCAAAACCCTGCCCCTCTCTCCCTGTAAGTCAGCGTATTGTGGGACGGTATGTCTGCCTGATGATTAGTGACTTGTGGGTCTCCTTCACTGGGTTGTAAATTGTGTGAGGATGGCTTGCTTATAATTACACGTCCATCTATCTGCTAAAGCCATCTCATACTCTTCACACTTAGCCAGTGTCAGAATAGACAGGCATGGTGGCACGTGTCTCTAATGCCAGCATTCAGGAGGCTGAGGCAGGAAGATCTTGAATTTGAGGCCTCCCTGTCTTCAAACAAATAAAAACAAAGCAAGGGGGTTAGACAGCTCGGTGGTTAAAAGCACTTTTTGTAAGCATGAAGGTCAGAGTTTGAGTCTCAGCACACACTTAACAAGCTGCCTACACCTCCAACCCCAGCTTCAGGATGGAGACAGGATGGCCAGGGCTCTCAGGCTACCAGTCTAGTGAAGAAAACCGTCCAGGTTCAAGGGGACCCCCTGCCTCAGAAATACAGTGCGGTAGCGGGGCACCTTATGTCCTCCCCTAATGCTCCTGGAGGCACATGCGCGCACACCAGGAGTTCAGACACCTGTTCTACACTCACATAGACACATTTACACATGAATGAACAAAAGGGCTGTGTTTCCATATGTCGCAAACCCTATGGAGGTCAAGAGCAGAGACAACTGCTGCTTTCTCTTCTTCGCGAAGATCCAAGCAGCCGATGCTGACTTCTCCTCACTAAGCACCAGACACCTATGTCCAGGATGGGGGATGGGGGACGGAGTGGTGAGCAGGACACTTGATCTGGGTTCCGGTTTGTGGTCAAACATGGATGTAAGGAATGGGTGAGGGCAGAGCGAGCCTGAGTCTTGCTCCTGTTGCAG
Seq C2 exon
TTCCAGGAGGACGGGTTTCTGCTGTTGGAAGGATTCTTCACAGCAGACGAGTGTGTGGTCATGCAGCAGAGGATTGGTGAGATTGTGGCTGAGATGGACGTCCCTCTGCACTGCCGGACAGAATTTTCCACCCAGGAAGATGAGCAGCTTCAAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016794:ENSRNOT00000022552:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.088
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF057218=PhyH=PU(21.0=98.1)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]