RnoALTD0016455-1/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000028730 | Lcn12
Description
lipocalin 12 [Source:RGD Symbol;Acc:1589474]
Coordinates
chr3:2718047-2718941:-
Coord C1 exon
chr3:2718836-2718941
Coord A exon
NA
Coord C2 exon
chr3:2718047-2718123
Length
0 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
CCTGCCTATCCTTCCCACAGGGG
3' ss Score
12.08
Exon sequences
Seq C1 exon
TTTCAGGGGGAGTGGTTTGTCCTCGGTCTGGCAGACAACACCTACAAGAGAGAGCACCGGCCTTTGCTGCATTCCTTTATCACGCTGTTCAAGCTGAGAGACAACA
Seq A exon
NA
Seq C2 exon
GGGCAAGCATTGCAGCACTTGGTCCTATACCCTGATCCCAACAAACAAGCCTGGGCAATTCACCAGGGACAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028730-2-3,3-3,4-3-1/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.296
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=PU(30.1=95.7)
A:
NA
C2:
PF0006118=Lipocalin=FE(17.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
ACCTACAAGAGAGAGCACCGG
R:
TAGGACCAAGTGCTGCAATGC
Band lengths:
94-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]