HsaEX6034613 @ hg19
Exon Skipping
Gene
ENSG00000162761 | LMX1A
Description
LIM homeobox transcription factor 1, alpha [Source:HGNC Symbol;Acc:6653]
Coordinates
chr1:165175101-165177369:-
Coord C1 exon
chr1:165177300-165177369
Coord A exon
chr1:165176719-165176851
Coord C2 exon
chr1:165175101-165175271
Length
133 bp
Sequences
Splice sites
3' ss Seq
TTTGTTGAACACTCTTATAGATT
3' ss Score
5.47
5' ss Seq
TCGGTAAGG
5' ss Score
10.48
Exon sequences
Seq C1 exon
ATGAAGAAGCTGGCCAGGCGACAGCAGCAGCAGCAGCAAGATCAGCAGAACACCCAGAGGCTGAGCTCTG
Seq A exon
ATTGGTGTTCTCATACATGCTGACTTGACTTTTACAACACCCATTCCTGGAGGCGAGTGGAGAAGTTGTTATTATCCCTATGTCACAGATGAGCAAACAAAGGCTCTGCAAGATTGAATGTGGCCCTAGATCG
Seq C2 exon
CTCAGACAAACGGTGGTGGGAGTGCTGGGATGGAAGGAATCATGAACCCCTACACGGCTCTGCCCACCCCACAGCAGCTCCTGGCCATCGAGCAGAGTGTCTACAGCTCAGATCCCTTCCGACAGGGTCTCACCCCACCCCAGATGCCTGGAGACCACATGCACCCTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162761-'9-12,'9-10,10-12=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.925 A=0.000 C2=0.700
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(3.5=8.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
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:
ATGAAGAAGCTGGCCAGGC
R:
TAAGGGTGCATGTGGTCTCCA
Band lengths:
239-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)