HsaALTD0003627-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000136944 | LMX1B
Description
LIM homeobox transcription factor 1 beta [Source:HGNC Symbol;Acc:HGNC:6654]
Coordinates
chr9:126695839-126696451:+
Coord C1 exon
chr9:126695839-126695982
Coord A exon
chr9:126695983-126696003
Coord C2 exon
chr9:126696294-126696451
Length
21 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
ACACCCCTTCTGCCCCCCAGGGA
3' ss Score
9.25
Exon sequences
Seq C1 exon
AGGTCCTGTCCAGCCGCATGGAGGGCATGATGGCTTCCTACACGCCGCTGGCCCCACCACAGCAGCAGATCGTGGCCATGGAACAGAGCCCCTACGGCAGCAGCGACCCCTTCCAGCAGGGCCTCACGCCGCCCCAAATGCCAG
Seq A exon
GTGACCACATGAACCCCTATG
Seq C2 exon
GGAACGACTCCATCTTCCATGACATCGACAGCGATACCTCCTTAACCAGCCTCAGCGACTGCTTCCTCGGCTCCTCAGACGTGGGCTCCCTGCAGGCCCGCGTGGGGAACCCCATCGACCGGCTCTACTCCATGCAGAGTTCCTACTTCGCCTCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136944-9-8,10-8-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.966 A=NA C2=0.237
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
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
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development