RnoINT0084617 @ rn6
Intron Retention
Gene
ENSRNOG00000028730 | Lcn12
Description
lipocalin 12 [Source:RGD Symbol;Acc:1589474]
Coordinates
chr3:2717627-2717983:-
Coord C1 exon
chr3:2717861-2717983
Coord A exon
chr3:2717729-2717860
Coord C2 exon
chr3:2717627-2717728
Length
132 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
GTGCTGTCCTCTGGCCACAGGTA
3' ss Score
9.83
Exon sequences
Seq C1 exon
GGTCAGGGCCTGGGGCAGACAAAGAAAACATACAGGTCATAGAGACAGACTACGTCAAGTTCGCCCTGGTGCTGTCCCTCAGACAGGCAAGCAACCAGAACATCACCAGGGTCAGCCTTCTGG
Seq A exon
GTGAGCCCCTGCTTCCCTGGGCCCTGTGCATGACTGTCCTCAAGGGCACGTGCTTCCTGGGTGTGGGACAGCTTGGGGACAAATACCTCACCACCACCAAGTACTGAGAGCTGTGCTGTCCTCTGGCCACAG
Seq C2 exon
GTAGAGACTGGAAGATAACTCATAAGACAATAGACAGGTTCATCTGCCTGACCAAGACCCAAAACCTCACAAAGAACAACCTTCTCTTCCCTGATTTAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028730:ENSRNOT00000020997:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(28.1=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(23.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGGGCAGACAAAGAAAACA
R:
ATCAGGGAAGAGAAGGTTGTTC
Band lengths:
210-342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]