HsaALTD0003668-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000148356 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:25135]
Coordinates
chr9:130248015-130250042:+
Coord C1 exon
chr9:130248015-130248114
Coord A exon
chr9:130248115-130248119
Coord C2 exon
chr9:130249955-130250042
Length
5 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ATTTGCTGTCTTTCTGGCAGCAT
3' ss Score
8.45
Exon sequences
Seq C1 exon
CCGCCATGCAGCAGATGCTGACTGAGAGCTGTAAGAACCGGCTCATCCAGATGGCCTACGAATCTCAGAGGCAGAACTTGGTCCAGCAGGCCTGTTCCAG
Seq A exon
GTAAG
Seq C2 exon
CATGGCCGAAATGGATGAACGATTCCAGCAGATTCTGTCGTGGCAGCAAATGGATCAGAACAAAGCCATCAGCCAGATCCTGCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148356-23-31,24-31-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF136461=HEAT_2=FE(33.7=100)
A:
NA
C2:
PF136461=HEAT_2=FE(29.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGAGGCAGAACTTGGTCCA
R:
CTGATCCATTTGCTGCCACGA
Band lengths:
94-99
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)