HsaEX6034610 @ hg19
Exon Skipping
Gene
ENSG00000162761 | LMX1A
Description
LIM homeobox transcription factor 1, alpha [Source:HGNC Symbol;Acc:6653]
Coordinates
chr1:165179936-165183050:-
Coord C1 exon
chr1:165182878-165183050
Coord A exon
chr1:165182196-165182292
Coord C2 exon
chr1:165179936-165180013
Length
97 bp
Sequences
Splice sites
3' ss Seq
TTTATTCTCTTCTGTCACAGTCC
3' ss Score
9.17
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
Exon sequences
Seq C1 exon
GTAAAAGTGATGATGAAGAAAGTCTCTGCAAGTCAGCCCATGGGGCAGGGAAAGGAACTGCTGAGGAAGGCAAGGACCATAAGCGCCCCAAACGTCCGAGAACCATCTTGACAACTCAACAGAGGCGAGCATTCAAGGCCTCATTTGAAGTATCCTCCAAGCCCTGCAGGAAG
Seq A exon
TCCAGAGGTGAGCAAGGCAAGGCTGGTGGGTGGCTCTGTTATCCATCTCCTGTGTCCAAGCGACTGCTCCAGTTGTCACCATGTTTCCAGTCACCAG
Seq C2 exon
GTGAGAGAGACTCTGGCTGCAGAGACAGGGCTGAGTGTCCGTGTCGTCCAGGTGTGGTTCCAAAACCAGAGAGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162761-'5-8,'5-7,7-8=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.483 A=0.121 C2=0.122
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=46.6)
A:
NA
C2:
PF0004624=Homeobox=FE(43.9=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTCTCTGCAAGTCAGCCCATG
R:
TCTGCAGCCAGAGTCTCTCTC
Band lengths:
175-272
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)