RnoINT0106540 @ rn6
Intron Retention
Gene
ENSRNOG00000020249 | P4htm
Description
prolyl 4-hydroxylase, transmembrane [Source:RGD Symbol;Acc:1311848]
Coordinates
chr8:117366688-117368782:-
Coord C1 exon
chr8:117368620-117368782
Coord A exon
chr8:117366874-117368619
Coord C2 exon
chr8:117366688-117366873
Length
1746 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GAATACCTGCTGCCTACCAGGGT
3' ss Score
4.23
Exon sequences
Seq C1 exon
GAGTGCTGAGTCTGCAGGAATTTTCCAACATGGACCTTCGAGACTTCCACAAGTACATGAGGAGCCATAAGGCAGAATCCAGCGAGCTGGTGAGGAACAGCCACCACACATGGCTCCACCAGGGCGAGGGAGCCCATCACGTCATGCGTGCCATCCGCCAGAG
Seq A exon
GTGAGCATCCGGGACCACTCTTCCTGGGGCAGGGTCGCCACACAAGTCCTTTGCCAGAGCCAAAGTGATGGAAACTGATGAACTAATTTAGGATTAAATTTCAATTGTTAGAGCAGGAATTTGAAACCCTGAAAACCAGGGCAGCTAATGAAGGCACATTGGCCTGGTTGTGGGCAAACAACCTGTGGAAATAAGTCAAGCCGGGCATGATGGTGCACGCCTTTAATGCCAGCACTCAGGAGGCAGAGGCAGGTGCATTTCTATGAGTTCAAGGACAGCCTGGTCTACAAAGCAAGTCCAGGACAGCCAGGGCTACAGAGACAAACCTTGTCTGAAAGAAAAAGCAATCAATCAAGTATTTATTTTCTGTCAGTTAGGAAAACTTTTCTGCTCAGAGAAGCCCTGGGCCTTGAACATGTAGCTTCATAAGCTAGGCTAAGACCTCACCCCCGTCATCCTGCAGTCTGGAGCTGAGGCCTGGACTTGGGCATGAAACTGTCTCAGGAAACCTGTGAAGATGAGGCTAAAGACGTGGCTTGGTTGGTCATGAGCTTGCCTACCATGTAAAAAGCCACATGTGATCTCGCTGCAGGAAACCAGGTCTTGCTGGGATCATCTCCAAGCCCAGAACTTGGGAGGCAGAGACTGAAGCTTCGGAAGCTACAGATTGCCCTAGGCCCACATGGGCCTACCTCAGAGTCTACCTTAAAAAAAAAAATCAAAAAATAAAAACAGAAGTTTTTAAATGAACGATTTTATTCCAGAGAAGAGAGTCAGCTCCCCTCCTCCTGAGTATACAGCCATCTTGTTTTCTCTGTTAGTTGGAGATCTCTGTGTCTGGCAGCCTGGGATGTAAATCATTACTACCACAGATCAGATCCTTTGTGCTCGCTCGCTCGTTCTCGCTCTCTTTCTCTCTCTCTCTCCTGTATATGTGTGTGTGTGTGTGTATGTGTGTCTTTGTGTATGTGTGCATATATGTGTGTGTGTCTCTATGTGTGTATGTGTGTGTGTCTGTATGTCTTTGTGAGTGTCTTTGTGTGTGTGTGTGTCTCTATGTGTGTATGTGTGTGTCTCTATGTGTGTATGTGTGTGTGTCTGTGTGTCTTTGTGTGTGTGTGCATATATGTGTGTGTCTCTATGTGTGTATGTGTGTATGTCTGTGTGTCTTTGTGTGTGCGTGTGTGTGCATATATGTGTGTGTGTCTCTATGTATGTATGTGTGTGTGTGTTTGTGTCTTTGTGAGTGTCTTTGTGTGTGTGTGTCTCTATGTGTGTATGTGTGTGTCTCTATGTGTGTATGTGTGTGTGTCTGTGTATCTTTGTGTGTGTGTGCATATATGTGTGTGTCTCTATGTGTGTATGTGTGTGTGTTTGTGTGTCTTTGTGAGTGTCTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGATGTCTCGTGTATCCCAGGCTCACCTCAAACTTGCTATCTGCTCCTACCTCCGAATCCCAAGTACTGGGGATACAGGCACAGACCACATTTCTGGCCTGCTAGGGTTGAATCTAAGACCCAGTACACGTTAGGCAAGCCCACTGCAATTAAATGACATTCCTAGCTCAGCCTTCCTGCTCTTAGAAATCACATCCAGCATGGCTCATGGGATCTCCAGGGGAGGTGGGCAAGGGTAAAGCTGTGGCTGGCCCAGGGTCCACCTTGGTCAGCTCCTCTGGGTGGCCATCTTGCTGAATACCTGCTGCCTACCAG
Seq C2 exon
GGTGCTGCGCCTCACTCGCCTCTCGCCAGAGATCGTGGAGCTCAGCGAGCCTCTACAGGTTGTACGATACGGTGAGGGAGGCCACTACCATGCCCATGTGGACAGCGGACCTGTGTACCCAGAGACCGTCTGCTCTCATACCAAGCTGGTAGCCAATGAATCTGTACCCTTCGAGACCTCCTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020249:ENSRNOT00000027466:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(10.5=20.0)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=PU(30.1=69.8)
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:
GAGTGCTGAGTCTGCAGGAAT
R:
ACAGGAGGTCTCGAAGGGTAC
Band lengths:
347-2093
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]