RnoALTD0016455-3/3 @ 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
chr3:2718805-2718835
Coord C2 exon
chr3:2718047-2718123
Length
31 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CCTGCCTATCCTTCCCACAGGGG
3' ss Score
12.08
Exon sequences
Seq C1 exon
TTTCAGGGGGAGTGGTTTGTCCTCGGTCTGGCAGACAACACCTACAAGAGAGAGCACCGGCCTTTGCTGCATTCCTTTATCACGCTGTTCAAGCTGAGAGACAACA
Seq A exon
GTGAGTTTCAGGTGACCAACTCCATGACTCG
Seq C2 exon
GGGCAAGCATTGCAGCACTTGGTCCTATACCCTGATCCCAACAAACAAGCCTGGGCAATTCACCAGGGACAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028730-2-3,3-3,4-3-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
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 Skipping Isoform:
NA
Other Skipping 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:
CCCAGGCTTGTTTGTTGGGAT
Band lengths:
122-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]