RnoINT0106536 @ rn6
Intron Retention
Gene
ENSRNOG00000020249 | P4htm
Description
prolyl 4-hydroxylase, transmembrane [Source:RGD Symbol;Acc:1311848]
Coordinates
chr8:117382036-117382715:-
Coord C1 exon
chr8:117382359-117382715
Coord A exon
chr8:117382118-117382358
Coord C2 exon
chr8:117382036-117382117
Length
241 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GCTGTGTACTTTTCCTTTAGGTG
3' ss Score
10.52
Exon sequences
Seq C1 exon
ATGGCGGCAGCGGTGGCGACCGTGCAGCGGCCTGTGGCTGAGACGATCGAGGAGGCCTCAAATCTTCAGTGGCCGCTGCCACCGGAGCATCGCCCTTCCGGGGCAGCGACCAGACCAGGCGATGGTGAAGAAGCACCGGTGCGGCCACTGTGCAAGCCACGGGGCATCTGTTCCCGTGCCTACTTCTTGGTACTGATGGTGTTCGTGCACCTGTACTTGGGCAATGTGCTGGCCCTGCTGCTCTTCGTGCACTACAGCAACGGGGACGAAAGCACAGACCCGGGACCCCAGCGCCGTGAGCAGAGCCCCCAGCCAGTGCCAACCTTAGGTCCCCTCACCCGGCTGGAGGGCATCAAG
Seq A exon
GTAAGAACATCCTCACCCCCCTCCCGCCTCCGCGCTGAGCCGCTCGCTCTTTAAGCATTGCCAAGCGGAGCCAGAAGGAACCGTGGCTCAGCTCTGGGCCACCACGCTGCCCCAACGCGCATCACTGTGTGCGGGTCACGCGCGCGCCTACTTACTTTCCTACTGTCGCGCCCTGACACGGGACTTTTCTTGAGCAGTGCGGCCTGGCACACCAGCTGCCTGCTGTGTACTTTTCCTTTAG
Seq C2 exon
GTGGGATATGAGCGGAAAGTCCAGGTGGTCGCGGGCAGGGATCACTTCATCCGAACCCTCAGCCTCAAGCCATTGCTCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020249:ENSRNOT00000027466:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.431 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
CAGGCGATGGTGAAGAAGCAC
R:
GCTGAGGGTTCGGATGAAGTG
Band lengths:
305-546
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]