RnoINT0005611 @ rn6
Intron Retention
Gene
ENSRNOG00000048676 | AABR07051445.1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:NCBI gene;Acc:687758]
Coordinates
chr3:11595518-11595950:+
Coord C1 exon
chr3:11595518-11595642
Coord A exon
chr3:11595643-11595915
Coord C2 exon
chr3:11595916-11595950
Length
273 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGA
5' ss Score
5.84
3' ss Seq
CCTTCCTTCACCTCTTTCAGGAG
3' ss Score
10.54
Exon sequences
Seq C1 exon
CCACGACCAGCGCTTCTTTGTGAAGACCCAACGACGCCAGGAAGTGCAGGTGCTGCTCGCCCACCTGCCCCGCTACGTGCGGCACCTGCAGCAGTACCCACACTCCCTGTTGGCACGGTTGCTGG
Seq A exon
GTACGACTGAGGGCCAGATCCTAGACTGCACAGTGCCTGGGGAGGGCGGATCCTGGGGCGGGGCCCAAGAGTCTCTGGCTCTGTTTCAGGCTGGACTGGGACTTCACCTAGGTGCAGGAGACACAGATTGAAAAGGGAGTCTGGGGGTGGGACCTGGAGTGACAGGCTCGGGTACGCGGTGGGTCTTGAGAAAGATGCAAGACCTGGAACGGGAAACTCCGGTCATATGGTTCCGGTTTTGCGGAGTTTGAAGCCTTCCTTCACCTCTTTCAG
Seq C2 exon
GAGTATACAGTTTGCGGGTGGCTCAGGGGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048676:ENSRNOT00000074122:4
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=FE(23.2=100)
A:
NA
C2:
PF0150413=PIP5K=FE(6.1=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:
CGACCAGCGCTTCTTTGTGAA
R:
CTTTTTCCCCTGAGCCACCC
Band lengths:
157-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]