RnoINT0084650 @ rn6
Intron Retention
Gene
ENSRNOG00000017161 | Lcn8
Description
lipocalin 8 [Source:RGD Symbol;Acc:1306747]
Coordinates
chr3:2874142-2874349:+
Coord C1 exon
chr3:2874142-2874231
Coord A exon
chr3:2874232-2874323
Coord C2 exon
chr3:2874324-2874349
Length
92 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
AATACCGTTCCATTCTGCAGGGA
3' ss Score
8.06
Exon sequences
Seq C1 exon
CTCGGAGCCTTGAGAATGAGGATGAGCCAGGCTTCTGGAGATTCCGGGAAATGACAGCAGACCAAGGCCTTTACATGCTGGCCCGACATG
Seq A exon
GTGAGGACAGCATCTTGGGGAGGATGCTGTATCAGGCCCCTATGATGGTGTCCGAGGCCCCCTAACTGTGCTAATACCGTTCCATTCTGCAG
Seq C2 exon
GGAGGTGTGCTGAGCTCTTGAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017161:ENSRNOT00000023062:5
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:
PF0006118=Lipocalin=PD(20.3=83.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGAGCCTTGAGAATGAGGA
R:
TTCAAGAGCTCAGCACACCTC
Band lengths:
111-203
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]