RnoINT0106539 @ rn6
Intron Retention
Gene
ENSRNOG00000020249 | P4htm
Description
prolyl 4-hydroxylase, transmembrane [Source:RGD Symbol;Acc:1311848]
Coordinates
chr8:117368620-117369853:-
Coord C1 exon
chr8:117369757-117369853
Coord A exon
chr8:117368783-117369756
Coord C2 exon
chr8:117368620-117368782
Length
974 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
GATGAGACTGCTCTGCGCAGGAG
3' ss Score
2.47
Exon sequences
Seq C1 exon
GTGCTGGCCCAGACTCGCCTGGGAAATGGACGGTGGATGACTCCGGAGAACATTCAGGAGATGTACTCTGCTATCAAGGCAGACCCCGATGGTGACG
Seq A exon
GTGAGCTCTCGCCCTCCACTGTTCTGTGCTTGTGAGCCATCTCCTCCCAAGAGCGTCCCTGGAAAGTGTGGGCCCTTCCCCGCAGCAGGCAGCTGCCGAGCACAGGGGGGGGGGGCTTGAAAGTGCAGAGAGGTAGGGAGGTGAGGACCCAGCTTTGCCTTTAACTCCTGGGAAGCAGGTGAAAAGCCAGCCGTCCTTCTCCTTGGTGACCGTCTACATGACAGATCCTGGAGACCCTTTTGGCTGCGTCCGGCAGAGTCTCGTGAACCTCAAGTGAGAATTCAGATGAAGCCTGCGGCTGGGGGCCTGTTGCATCCCTTTACTATAATGTCAGGCTACTTTGAGTAGAATCCAGGCCAAAGGATAGAAGAATTACAGCAAAGCCACCCACTCTGCCAGAGCCCCAGAGGGATAGCTCTGCTCAGTGGTTTGAGCAGGAACAGAGGAGTCTTCTCGGCTGTGGAGTGGACAGGAGTTTTTTTTTTTTTTTTTTTTTTTTGCTAGGGTAACTGGTATTGTAGCCAGAAGGGCTGGCCGACAGGGTACCACCAAGGATAGGACTTGAGGGAACTTGACTAGCCCTGCTTTCACACTACAGTGTGGAAGAGAGTTCTCTCTCCTCACACGCCATAGGCTGGAACATGGCTCACTCACACTGCTACAGGGCAGGTGGCAGAGCCTGGGGCCATCTTGGTCATGTGGCCCAAGTGTCCCATGGAGACCCTGCTCTGGCTGTCTGGGTTTTCGGGACCAAATCAAGGTTTAAACAGAAAACAAACTTCTCTGGGTCTTCCCTCAGGGCCCGATGTGACAGAAACCAGGTTCATCTGACCCGAGTCCAGGTGGGGACACATGGCCCCCCAGTGCCTGAGGCCAGGGGCTGCCGCTACCTTTGGGGTAGGTAGGGAGGTGCTGCCTGCCGCTGTGTTCCTCCACACTGGCGAGGCAGGCACTGATGAGACTGCTCTGCGCAG
Seq C2 exon
GAGTGCTGAGTCTGCAGGAATTTTCCAACATGGACCTTCGAGACTTCCACAAGTACATGAGGAGCCATAAGGCAGAATCCAGCGAGCTGGTGAGGAACAGCCACCACACATGGCTCCACCAGGGCGAGGGAGCCCATCACGTCATGCGTGCCATCCGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020249:ENSRNOT00000027466:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.145
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=FE(30.5=100)
A:
NA
C2:
PF134991=EF-hand_7=PD(10.5=20.0)
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:
CAGACTCGCCTGGGAAATGGA
R:
GCGGATGGCACGCATGAC
Band lengths:
246-1220
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]