RnoINT0106541 @ rn6
Intron Retention
Gene
ENSRNOG00000020249 | P4htm
Description
prolyl 4-hydroxylase, transmembrane [Source:RGD Symbol;Acc:1311848]
Coordinates
chr8:117366008-117366873:-
Coord C1 exon
chr8:117366688-117366873
Coord A exon
chr8:117366099-117366687
Coord C2 exon
chr8:117366008-117366098
Length
589 bp
Sequences
Splice sites
5' ss Seq
TCGGCAAGT
5' ss Score
4.02
3' ss Seq
GCAGCCCCCCTGCCTTACAGCTA
3' ss Score
6.56
Exon sequences
Seq C1 exon
GGTGCTGCGCCTCACTCGCCTCTCGCCAGAGATCGTGGAGCTCAGCGAGCCTCTACAGGTTGTACGATACGGTGAGGGAGGCCACTACCATGCCCATGTGGACAGCGGACCTGTGTACCCAGAGACCGTCTGCTCTCATACCAAGCTGGTAGCCAATGAATCTGTACCCTTCGAGACCTCCTGTCG
Seq A exon
GCAAGTACCTCCCACGGGGGGGCGTGGCTTCAGTTGCCCGACTGGGCACCTTGAGAAGTATGAGACCAAGACTACACTGGGCCATCCTGGTCAGCTGTACCCCACCTTCCCCCCAAGTCTCTCCTTTATGGAGTAACAGGAAAGTGGTGGCTACTGGCCATAGTGTCTATCTATTCAAATGAAAACAGATCTAGCTATCACAGATACTGAAACTTGGCCCCTCTGAGCAATGATTTGACTCCTTCGCTGGAGGTCTCAGGCTCCGTGTCCAGAGTTGTGCCCTCCTGCCTGCACAAAGTTAAGTTTTCTCCTGACTTTCTGGCTTAGTCCTCCCAGTTGCAAGGAGATTGAACAGTATTTCAGCTTCTAAAAGCTTACTCTTCCCAGCCAGATCTTTGGCGTAAGGTCACAAACTTACCTCAGTGCACCTGTGATCCTGGCCACCCAGGAAGAACGGCTCTGCAGGGAAAAGGGCTAGACACATCTTAGCTAGCCTAGCCTGACCCTGTGGCCCCCGGGTATCCTGCCACAAGTGGGAATATCATAACCCACAGTTGGGGATCCGCTCAGCAGCCCCCCTGCCTTACAG
Seq C2 exon
CTACATGACAGTGCTGTTTTATTTGAACAATGTCACCGGTGGGGGCGAGACTGTCTTCCCTGTAGCAGACAACAGGACCTACGATGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020249:ENSRNOT00000027466:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.032
Domain overlap (PFAM):
C1:
PF136401=2OG-FeII_Oxy_3=PU(30.1=69.8)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=FE(20.5=100)
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:
CGCCTCACTCGCCTCTCG
R:
CATTTCATCGTAGGTCCTGTTGTCT
Band lengths:
270-859
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]