RnoINT0084616 @ rn6
Intron Retention
Gene
ENSRNOG00000028730 | Lcn12
Description
lipocalin 12 [Source:RGD Symbol;Acc:1589474]
Coordinates
chr3:2717861-2718123:-
Coord C1 exon
chr3:2718047-2718123
Coord A exon
chr3:2717984-2718046
Coord C2 exon
chr3:2717861-2717983
Length
63 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CTGACATGTGTGTCCCCCAGGGT
3' ss Score
9.88
Exon sequences
Seq C1 exon
GGGCAAGCATTGCAGCACTTGGTCCTATACCCTGATCCCAACAAACAAGCCTGGGCAATTCACCAGGGACAACAGAG
Seq A exon
GTAAGAGAGACAGGGGTGGGAGGGATACGACTGCCTTGGGAACCTGACATGTGTGTCCCCCAG
Seq C2 exon
GGTCAGGGCCTGGGGCAGACAAAGAAAACATACAGGTCATAGAGACAGACTACGTCAAGTTCGCCCTGGTGCTGTCCCTCAGACAGGCAAGCAACCAGAACATCACCAGGGTCAGCCTTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028730:ENSRNOT00000020997:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.296 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(17.8=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(28.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
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:
GGCAATTCACCAGGGACAACA
R:
TGACCCTGGTGATGTTCTGGT
Band lengths:
138-201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]