RnoALTA0022580-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000022312 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:RGD Symbol;Acc:1564403]
Coordinates
chr3:11975947-11977817:-
Coord C1 exon
chr3:11977719-11977817
Coord A exon
chr3:11976075-11976078
Coord C2 exon
chr3:11975947-11976074
Length
4 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCCACTGGGCCATCCCGCAGGAA
3' ss Score
7
Exon sequences
Seq C1 exon
GCGGAATTAGAGGCCAAGAGTGAAACGAAGCAGGAAAATTACTGGCTCATCCAGTACCAACGGCTTTTGAACCAGAAGCCTTTGTCCTTGAAGCTGCAG
Seq A exon
GAAG
Seq C2 exon
AAGGCATGGAGCGGCAGCTGGTGGCCCTGCTGGTGGAGCTGTCTGCTGAGCACTACCTGCCCCTCTTCGCCCACCACCGCATCACACTGGACATGCTGAGCCGGATGGGTCCTGGAGATCTGGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022312-29-34,29-33-2/2
Average complexity
Alt3
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0764712=SAM_2=PU(64.4=86.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
ACCAACGGCTTTTGAACCAGA
R:
CAGGTAGTGCTCAGCAGACAG
Band lengths:
103-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]