BtaEX0020361 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000012025 | LMX1A
Description
Bos taurus LIM homeobox transcription factor 1, alpha (LMX1A), mRNA. [Source:RefSeq mRNA;Acc:NM_001191325]
Coordinates
chr3:3694646-3856252:+
Coord C1 exon
chr3:3694646-3694832
Coord A exon
chr3:3810304-3810536
Coord C2 exon
chr3:3856080-3856252
Length
233 bp
Sequences
Splice sites
3' ss Seq
TGCTTTTTCCCTGCTGCTAGGCT
3' ss Score
7.88
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
GCAGAGCGGTGAGCCCGAAGTCTGTCTGTGAGGGCTGTCAACGGGTCATCTCGGATAGGTTTCTGCTGCGGCTCAACGACAGCTTCTGGCATGAGCAGTGCGTGCAGTGTGCCTCCTGCAAAGAGCCCCTGGAGACCACCTGCTTCTACCGGGACAAGAAGCTCTACTGCAAGTATGACTATGAGAA
Seq A exon
GCTGTTTGCTGTCAAATGCGGGGGCTGCTTTGAGGCCATCGCACCCAACGAGTTTGTTATGCGGGCCCAGAAGAGCGTGTACCACCTGAGCTGCTTCTGCTGCTGTGTCTGCGAGCGGCAGCTCCAGAAGGGTGATGAGTTTGTCCTGAAGGAGGGGCAGCTGCTCTGCAAAGGGGACTATGAGAAGGAGCGGGAGCTGCTCAGCCTGGTGAGCCCAGCAGCGTCAGACTCAG
Seq C2 exon
GGAAAAGTGATGATGAGGAAAGTCTTTGCAAGTCAGCCCACGGGGCAGGGAAAGGAGCCTCTGAGGACAGCAAGGACCATAAGCGCCCCAAACGTCCCAGAACCATCTTGACAACCCAGCAGAGGAGAGCATTCAAGGCCTCGTTTGAAGTATCCTCCAAGCCGTGCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012025-'1-5,'1-1,2-5
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.552
Domain overlap (PFAM):
C1:
PF0041217=LIM=PU(94.6=84.1)
A:
PF0041217=LIM=PD(3.6=2.5),PF0041217=LIM=WD(100=74.7)
C2:
PF0004624=Homeobox=PU(47.4=46.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTCTGTGAGGGCTGTCAA
R:
TCCTCTGCTGGGTTGTCAAGA
Band lengths:
293-526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development