HsaALTD0003627-1/2 @ hg19
Alternative 5'ss
Gene
ENSG00000136944 | LMX1B
Description
LIM homeobox transcription factor 1, beta [Source:HGNC Symbol;Acc:6654]
Coordinates
chr9:129458118-129458730:+
Coord C1 exon
chr9:129458118-129458261
Coord A exon
NA
Coord C2 exon
chr9:129458573-129458730
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
ACACCCCTTCTGCCCCCCAGGGA
3' ss Score
9.25
Exon sequences
Seq C1 exon
AGGTCCTGTCCAGCCGCATGGAGGGCATGATGGCTTCCTACACGCCGCTGGCCCCACCACAGCAGCAGATCGTGGCCATGGAACAGAGCCCCTACGGCAGCAGCGACCCCTTCCAGCAGGGCCTCACGCCGCCCCAAATGCCAG
Seq A exon
NA
Seq C2 exon
GGAACGACTCCATCTTCCATGACATCGACAGCGATACCTCCTTAACCAGCCTCAGCGACTGCTTCCTCGGCTCCTCAGACGTGGGCTCCCTGCAGGCCCGCGTGGGGAACCCCATCGACCGGCTCTACTCCATGCAGAGTTCCTACTTCGCCTCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136944-6-6,7-6-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.975 A=NA C2=0.227
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGATCGTGGCCATGGAAC
R:
CGCTGTCGATGTCATGGAAGA
Band lengths:
113-134
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)