RnoINT0110768 @ rn6
Intron Retention
Gene
ENSRNOG00000016794 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:RGD Symbol;Acc:1310377]
Coordinates
chr3:8835805-8839239:+
Coord C1 exon
chr3:8835805-8835963
Coord A exon
chr3:8835964-8839163
Coord C2 exon
chr3:8839164-8839239
Length
3200 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGGT
5' ss Score
2.53
3' ss Seq
TCCTATGCTCCCTTCCATAGGGC
3' ss Score
11.94
Exon sequences
Seq C1 exon
TTCCAGGAGGACGGGTTTCTGCTGTTGGAAGGATTCTTCACAGCAGACGAGTGTGTGGTCATGCAGCAGAGGATTGGTGAGATTGTGGCTGAGATGGACGTCCCTCTGCACTGCCGGACAGAATTTTCCACCCAGGAAGATGAGCAGCTTCAAACTCAG
Seq A exon
GCAGGTACCTGGGACGATGAGGACGGGCGTCCGGCTTTGGTGGGTGCTCAGTCTGGATGGGAGGACCCTAAGGCCGTAGACTTCTGATAAGGGATCAGACTTCAGTCATCTGCATGCCAGGTACCAGGCTAAAGAGCTGTGCTGTATCGTTCCTCACTATGAATTCATAAGATGGCTATTACTGTTCTCCCTTGGCAATGGGCAAAGCCGGGCTTTTCTCCGGGTAATATTGTGTGGCTCCAGCCACACAGTTTGTAACTGATAGAGACTTGAATCCACCTCTCTGATATCAAATAGTGCTGGTCATTGACCTGCTGTGGTTTCTCAAGTTCTCTGGTCACAAAGAACCCTCTGTGAGCCCTGTGATAGGCCGCTCTTGGGTGAGTCATCTCCCTGCCAGACTAGGGAGGTCAGTTGCTACCTCAGACTCAACACAGTTTGACAAGTTAGGTGGTTCTTCCAGAGTTCCCTTAACCCTTCTTAGCCTGAATTTTTAAGTGGCCCAGAGGGCTCGCCTTATACTGATGCCAAGGAGCGCCTGCCATCTGGTGGCCATAAATAGAATTGCAGCAGCCCGAAACTACTTTCTCCCAGAGAGGGGAGGATGGAGTCTTCAGAAGACACATAACAGAATAAGTATTTTTCCGACTAGCAGGACAGACACACTCTAAGGGGTGAGGGGGCTGGATCCTGTCCCTTTATCTAGCTACCTACCTAGAAGACTCTAACGCTCCGTTGACTGCAGAGGTAGGAATGATAAAAGAAGAAAGGGTGGTGTTGGAGAGATGGCTCAGTGGTTAAGCACTGGCTGTACTTCCAGAGGACCAGGGTTTAATTCCCAGCTCCCAGTTCCCACATGGACGCTCATAACTGTCTGTATTTCCAGTTCCAGAGGTTCAATACTCTCATACCGATATACATATGGGCAAAACACCAATACACAGAAAAGAATCACAGAAGCAGGCAGATCTCTGTGAGTTCTAGGCAGACTACTCTACAAAGCGAGTTCTAGGACAGCTAGGGCTGTTATACAGAGAAATTGTATAGCAAAAGACCAAAAACCAAAAAAAACAAATGAAGAGAAAGAAGAAAGACGAGGAGGAAGAGGAGGTGGTGGTGGTGTGGTTTAGGGTGCTGGGAATCGAACCTGGGTTCTTAGCAGAGCTCACTGGGCCATCTTCCTAGCCCTAAGAAGCAGTAACTGTGCATTGAAACTTTGTTCTTTCCCCCAGTGATTCAGCTGCAGTGCTGGGTGGAGTCAGGGAGCAGCACCTCCCTGGGAGAGACAACAAAGTTTTGTAATGTATGTGTTGCCAGAATTTTTCAGATAGAATGTTTGCTTGTTTGTTTTGAGACAGGGTCTTATTTTATAGCCTTGTCTGTCCTGGGACTTGCTGTGTAGCCTGGGTTGGCCTCAAGTGCACAGAGATCTGTTGGCCACAACTGTTCTGTCACCTTCAGCTCAGGACCATACACCACGTAAGATGCTCAACATATAAAATAGGCACGACCCCTGCTAATGTAAGTCTCTTTCGTATGTTTAGGGTCAGGCAAAGCTGTTCAATTGGGCAAGTGTGACAATGACTTCTTGCTGTGGCAAAACCTGGCGATAGAAGGAGATGGGTTTATTGTGCTCCCTGTTTCAGATGGTTCAGTCCATGGTCACTTGATTTGTTGCAGGATGCTTGATCACACTGTGAGCTCCAAGGTTGTGTTGCTTACTGGAAAAACCTATTTCTAGTTATGATGTGACTCAGCCCTTAGCACACAGTTTAACACGTCGCTAGCACATACCCTTAACCCCAAAAAATGAATGTAAAGTTTGTAGAAGGAAGCACCTATGTTTGAAAGTGATGTCTAATTGAGTGGCAGACAAAGGGATGACTCAGAGAAAGATTTGACAGACTAGGATATGCCCAACTCTCACAAGAACAGGCTACGTAGGAGAGAGCGGTACAGAGAGAGGAAGGAGGAGGCCGTTTTACTGGGAGAGTTTTACAGAGTCAGGGCAGATAGAACAGAACAAGCCAGAGAATGAGAAGGAGCCAGAAGATTAGAACAGATTGCTAAAGTTAGTATGAGGCCAAGCAGAGCACTTCAGTCAGAGGCCAAGAGAGGAGCCACCTTGGAGAGGAGTTTAAGCCAGCTGAGGTGAACCAGCCAGCCAGAGCTGAGAAAGAACAAGAAAGGGTGAGCTTAGAGGCTGAAAACATTCTAGGCCTAGATTGGATTGTATGGAGGCTGGAAGCTTCCAGGACTAGGCCTAGGTTAGCAGACATAGGGAGCAAACCTTTGAGATGACAGTTATTTCAGGTGAAGAAAAGTTATCTTTCATAGCTTCATGACCAGGGGCCTGTGGTGAGACAGACTTGTGACAGGGCGAGTGGTCTTGAAGCAGAGCTGCTCGCCTCACAGCAGCTGGGAAGCAGAGGAGGGGTCTGTGGCAAGATGAACCATTCCTTCAAAGCCTCACCCCAGTGGCCTACCGCCTCCAAGGCCCAGGCTCCCAAGAGTCCCCAGCCGTGAGCCCATCAATGGACGAACAGCCAAGTTAGTATCTCTCCCAGCCATGGTCACCACTGCTGGGGACCAAGCCTCCAGTACATGAGCACTTTTGGGAGGACACTTCTGTGAATACACTGTAAGAATTGCCTGGATGTATTAAAGACGTTTTTTGATGGCCCAGACTGCTCACCAAACTCAGATGGGGACTTGAGTTCAATCCCCAAGACCCCATTTAAAAACATCTGGGGTGCACCCCTCTAGTCCTACTGCTTGGGGAAGTGGAGGCAGTGGATCCGTAGAGCTTGATGGCTGGCTAGCCTAGCCTACTTAGTGACTCTCGGGCCAGCGAGAGACCCTGCCTCAATGAAAACGGGGTAGATGGCTCTGGAAAAATGGCACCTGAGGTTGTCCCCTGCCCCATACCTGTACTATACAAAAGGCGTTTTTGATCTGTAAGATTTTCAGCTTAGGTAAACTTAATGTGCTCCAAGTTCCATGGTGAATTAAGGAGCGATGTCCAGGAAACCCTAGTTTGTGGCTTAAGGCACCTGGGGTTGGAGCTGACTGTCTGTACCTCAGTGGCCATGTCTGAGAAGCTCCCACGGGGCATCTGTAGTCCTGTGTGAGCAGGTAGCTCCTGAGTCCTGCTCTGTCCCTCAGCTCTTCTCTAGTCTCTCCTATGCTCCCTTCCATAG
Seq C2 exon
GGCAACACGGACTACTTCTTGAGCAGTGGTGACAAGATCAGATTCTTCTTTGAAAAAGGCGTTTTTGATGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016794:ENSRNOT00000022552:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.088 A=NA C2=0.064
Domain overlap (PFAM):
C1:
PF057218=PhyH=PU(21.0=98.1)
A:
NA
C2:
PF057218=PhyH=FE(10.1=100)
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]