HsaEX6034609 @ hg19
Exon Skipping
Gene
ENSG00000162761 | LMX1A
Description
LIM homeobox transcription factor 1, alpha [Source:HGNC Symbol;Acc:6653]
Coordinates
chr1:165179936-165218877:-
Coord C1 exon
chr1:165218645-165218877
Coord A exon
chr1:165182878-165183050
Coord C2 exon
chr1:165179936-165180013
Length
173 bp
Sequences
Splice sites
3' ss Seq
TTGTCTTTTGCTTCTTTCAGGTA
3' ss Score
12.04
5' ss Seq
AAGGTATAG
5' ss Score
7.98
Exon sequences
Seq C1 exon
GCTGTTTGCTGTTAAATGTGGGGGCTGCTTCGAGGCCATCGCTCCCAATGAGTTTGTTATGCGGGCCCAGAAGAGTGTATACCACCTGAGCTGCTTCTGCTGCTGTGTCTGCGAGCGACAGCTTCAGAAGGGTGATGAGTTTGTCCTGAAGGAGGGGCAGCTGCTCTGCAAAGGGGACTATGAGAAGGAGCGGGAGCTGCTCAGCCTGGTGAGCCCAGCAGCCTCAGACTCAG
Seq A exon
GTAAAAGTGATGATGAAGAAAGTCTCTGCAAGTCAGCCCATGGGGCAGGGAAAGGAACTGCTGAGGAAGGCAAGGACCATAAGCGCCCCAAACGTCCGAGAACCATCTTGACAACTCAACAGAGGCGAGCATTCAAGGCCTCATTTGAAGTATCCTCCAAGCCCTGCAGGAAG
Seq C2 exon
GTGAGAGAGACTCTGGCTGCAGAGACAGGGCTGAGTGTCCGTGTCGTCCAGGTGTGGTTCCAAAACCAGAGAGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162761-'4-8,'4-5,5-8=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.483 C2=0.122
Domain overlap (PFAM):
C1:
PF0041217=LIM=PD(3.6=2.5),PF0041217=LIM=WD(100=74.7)
A:
PF0004624=Homeobox=PU(47.4=46.6)
C2:
PF0004624=Homeobox=FE(43.9=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTTAAATGTGGGGGCTGCT
R:
TCTGCAGCCAGAGTCTCTCTC
Band lengths:
248-421
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)