HsaEX6034611 @ hg19
Exon Skipping
Gene
ENSG00000162761 | LMX1A
Description
LIM homeobox transcription factor 1, alpha [Source:HGNC Symbol;Acc:6653]
Coordinates
chr1:165177300-165183050:-
Coord C1 exon
chr1:165182878-165183050
Coord A exon
chr1:165179936-165180013
Coord C2 exon
chr1:165177300-165177369
Length
78 bp
Sequences
Splice sites
3' ss Seq
TCTCGTTCAATTTTTCCAAGGTG
3' ss Score
6.62
5' ss Seq
AAGGTAACC
5' ss Score
9.24
Exon sequences
Seq C1 exon
GTAAAAGTGATGATGAAGAAAGTCTCTGCAAGTCAGCCCATGGGGCAGGGAAAGGAACTGCTGAGGAAGGCAAGGACCATAAGCGCCCCAAACGTCCGAGAACCATCTTGACAACTCAACAGAGGCGAGCATTCAAGGCCTCATTTGAAGTATCCTCCAAGCCCTGCAGGAAG
Seq A exon
GTGAGAGAGACTCTGGCTGCAGAGACAGGGCTGAGTGTCCGTGTCGTCCAGGTGTGGTTCCAAAACCAGAGAGCGAAG
Seq C2 exon
ATGAAGAAGCTGGCCAGGCGACAGCAGCAGCAGCAGCAAGATCAGCAGAACACCCAGAGGCTGAGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162761-'5-9,'5-8,8-9=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.483 A=0.122 C2=0.925
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=46.6)
A:
PF0004624=Homeobox=FE(43.9=100)
C2:
PF0004624=Homeobox=PD(3.5=8.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACTGCTGAGGAAGGCAAGG
R:
TGGGTGTTCTGCTGATCTTGC
Band lengths:
175-253
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)