RnoINT0005612 @ rn6
Intron Retention
Gene
ENSRNOG00000048676 | AABR07051445.1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:NCBI gene;Acc:687758]
Coordinates
chr3:11595916-11596093:+
Coord C1 exon
chr3:11595916-11595950
Coord A exon
chr3:11595951-11596037
Coord C2 exon
chr3:11596038-11596093
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCCCAACCCCTGTCCCCAGAAG
3' ss Score
7.74
Exon sequences
Seq C1 exon
GAGTATACAGTTTGCGGGTGGCTCAGGGGAAAAAG
Seq A exon
GTGAGTGTAACGGAGGCGCTCGCCTCAGCAGTGGGGGCTGCTGGAGGGTGAGCCCAGGCTTCCCTCACTCCCAACCCCTGTCCCCAG
Seq C2 exon
AAGTACTTCATCATCATGCAGTGCATCTTCTACCCTACCAGCCGCATCTCTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048676:ENSRNOT00000074122:5
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(6.1=100)
A:
NA
C2:
PF0150413=PIP5K=FE(9.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATACAGTTTGCGGGTGGCT
R:
TCTCAGAGATGCGGCTGGTAG
Band lengths:
88-175
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]