BtaEX6013736 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000012025 | LMX1A
Description
Bos taurus LIM homeobox transcription factor 1, alpha (LMX1A), mRNA. [Source:RefSeq mRNA;Acc:NM_001191325]
Coordinates
chr3:3856080-3861034:+
Coord C1 exon
chr3:3856080-3856252
Coord A exon
chr3:3859102-3859179
Coord C2 exon
chr3:3860965-3861034
Length
78 bp
Sequences
Splice sites
3' ss Seq
TAATGTTACGTATTTTTAAGGTG
3' ss Score
7.35
5' ss Seq
AAGGTAATC
5' ss Score
7.46
Exon sequences
Seq C1 exon
GGAAAAGTGATGATGAGGAAAGTCTTTGCAAGTCAGCCCACGGGGCAGGGAAAGGAGCCTCTGAGGACAGCAAGGACCATAAGCGCCCCAAACGTCCCAGAACCATCTTGACAACCCAGCAGAGGAGAGCATTCAAGGCCTCGTTTGAAGTATCCTCCAAGCCGTGCAGGAAG
Seq A exon
GTGAGGGAGACCCTGGCTGCAGAGACAGGGCTGAGCGTCCGTGTGGTTCAGGTGTGGTTCCAGAACCAGAGAGCTAAG
Seq C2 exon
ATGAAGAAGCTGGCCCGGCGGCAGCAGCAGCAGCAGCAAGATCAGCAGAACACCCAGAGGCTGAGTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012025-'4-7,'4-6,5-7=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.552 A=0.019 C2=1.000
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=46.6)
A:
PF0004624=Homeobox=FE(43.9=100)
C2:
PF0004624=Homeobox=PD(3.5=8.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGAGGACAGCAAGGACCAT
R:
AACTCAGCCTCTGGGTGTTCT
Band lengths:
181-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]