RnoINT0110767 @ rn6
Intron Retention
Gene
ENSRNOG00000016794 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:RGD Symbol;Acc:1310377]
Coordinates
chr3:8845040-8846125:+
Coord C1 exon
chr3:8845040-8845166
Coord A exon
chr3:8845167-8845734
Coord C2 exon
chr3:8845735-8846125
Length
568 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
ACCTGTTGCACTCTCTGCAGGCT
3' ss Score
9.24
Exon sequences
Seq C1 exon
GGGGTCTGGTCCTGATCCACGGAGAAGTGGTGCACAAGAGTGAGCAGAACCTTTCCGACCACTCACGCCAGGCCTACACTTTCCACCTCATGGAGGCCGCCGGCACTGTCTGGAGCCCAGGGAACTG
Seq A exon
GTAGGTACCAGGGTTGGTGTGTGCTCCAGAGAACCTCTTCAGAAGACCCTTTAGGCTAGGCACAGTCGTCCCTTAACCCCCAAATTGTATTGACAGTTTTGGAGTTTAGGTTTCTTTAAAAAACACAGAAATATTATGGGAATATATTTTTCGTTTTAATCCCAGGTATGAGATATGTGGCTACTTCAGATTGTCCACAGCAGCTGACTATAATTTGCCCCGTGCTCTAGCAGGGGCATGATTTTGCCAGCATTAGATAGTTTCTGTGACTGTGTGACAGTTGGGACTCTGGGGACCTTTCAGAGAGTCTATAAATGCTAGGGCCACAAGAGGCAGGGTGAGTTGTTGGCCTTGGTTTGTTAAATAGTTGTTAAATAGAAACAATCATAAATTAGATCAAACTTGCCCCAAGGAACTTGATTTTCCTAACAGGCAGGAAGTAGTTTAATGATAATGTCACCTTTCCTTTTTCGCCATCTCGTGTTGGGGGTTAGGGTGGAAAAGGGTGGAAGAACGTTCTCACGAAATAGCCAAAGTCTAGCTGTAGCACCTGTTGCACTCTCTGCAG
Seq C2 exon
GCTTCAGCCCACGACTGAGCTGCCCTTCCCACCACTCTACATCTAAAGGCCCTGGCAGAGCAGGGCTGGTGAGGGTCCCCCACCCTCAGCCCCAATGCTACCAACACCAGGGCCTCTGGCTGCAACCAAGCGCGCATCTTCTTGTATGGCTTTCTTTCTGATGTTGTCTGTGACCTTGGTCCACCAGACAGGGAGCCAAGAAGCAGAAATGACTGAGCAGGAGCCCAAGCTCGGGGAGAGGAGGGACTTCCTCTAAAATTTTCTCTCTCTACACCTTCCTGTTCCAACCCAGCTTTCTGAAGTGTCCACTCGGCAGTGAAAGGATTCACTTGGGTTTTCTCTTGGATGGGTGTTTCTGTGTCAGGCACTGAATAAAGGCAACTTAAAATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016794:ENSRNOT00000022552:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=PD(9.7=55.8)
A:
NA
C2:
NO
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:
TGGTCCTGATCCACGGAGAAG
R:
GGGCTCCTGCTCAGTCATTTC
Band lengths:
347-915
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]