RnoINT0005610 @ rn6
Intron Retention
Gene
ENSRNOG00000048676 | AABR07051445.1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:NCBI gene;Acc:687758]
Coordinates
chr3:11595151-11595642:+
Coord C1 exon
chr3:11595151-11595305
Coord A exon
chr3:11595306-11595517
Coord C2 exon
chr3:11595518-11595642
Length
212 bp
Sequences
Splice sites
5' ss Seq
GTCGTGAGC
5' ss Score
2.91
3' ss Seq
CTCTCTGTTCCCACCTGCAGCCA
3' ss Score
11.29
Exon sequences
Seq C1 exon
GGCTTCGAACTGGGCACCCTGGCTGGTCCAGCTTTTGCACGGCTGAGGCAATCCATTGGCCTGACTGAAGAAGACTACCAGGCTACTCTTGGCCCTGGTGACCCCTACCTTCAATTCCTCAGCACCTCCAAGAGCAAGGCCAGCTTCTTCCTGTC
Seq A exon
GTGAGCTTGCAGCAGGGGTGGGGCGGAATTGGGGCTCCATTCCAGGCTGGCGGAATGGCCCTCGGACCGAGAGGGCCAGGGCCAGAGGAAGGTGGGATGAAGCAAGGGAGGGTGGCCAGACACATCTATCCTGTGCAAAAGCAGGAGCAAGAGACTTGGTCGTAACCACTCCAGCCAAGCCTGGACAGTGACCTCTCTGTTCCCACCTGCAG
Seq C2 exon
CCACGACCAGCGCTTCTTTGTGAAGACCCAACGACGCCAGGAAGTGCAGGTGCTGCTCGCCCACCTGCCCCGCTACGTGCGGCACCTGCAGCAGTACCCACACTCCCTGTTGGCACGGTTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048676:ENSRNOT00000074122:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0150413=PIP5K=PU(13.3=46.2)
A:
NA
C2:
PF0150413=PIP5K=FE(23.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGCACGGCTGAGGCAATC
R:
CCAACAGGGAGTGTGGGTACT
Band lengths:
236-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]