HsaALTD0003622-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000135363 | LMO2
Description
LIM domain only 2 (rhombotin-like 1) [Source:HGNC Symbol;Acc:6642]
Coordinates
chr11:33891256-33892075:-
Coord C1 exon
chr11:33891891-33892075
Coord A exon
chr11:33891887-33891890
Coord C2 exon
chr11:33891256-33891533
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAGGTGCTT
5' ss Score
1.61
3' ss Seq
TGTATTTGAATCGTGATCAGGAA
3' ss Score
4.87
Exon sequences
Seq C1 exon
CGCCTCTGCAGAGCGCGGCCGCAGCCCGGAGCCCGCAGCCCGGAGCCCGCAGCCTGGGGCCCGCAGCCCGTAGCCCGCAGCCCGCAGAGCCGCGCTGTCCGGGGCATCCCAGTGCACGGCGTCCGTGGACCTGGGACCTCGAACCTGGGACGGGCGGAAAATCCACTGGGAACACTTGCATTTCT
Seq A exon
GTAG
Seq C2 exon
GAAAAAGGAAATGAAACCAGAGACAGAGGGAAGCTGAGCGAAAATAGACCTTCCCGAGAGAGGAGGAAGCCCGGAGAGAGACGCACGGTCCCCTCCCCGCCCCTAGGCCGCCGCCCCCTCTCTGCCCTCGGCGGCGAGCAGCGCGCCGCGACCCGGGCCGAAGGTGCGAGGGGCTCCGGGCGGCCGGGCGGGCGCACACCATCCCCGCGGGCGGCGCGGAGCCGGCGACAGCGCGCGAGAGGGACCGGGCGGTGGCGGCGGCGGGACCGGGATGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135363-5-5,6-5-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
TCCACTGGGAACACTTGCATT
R:
CTTCCTCCTCTCTCGGGAAGG
Band lengths:
93-97
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)