BtaALTD0012230-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000006951 | LMO2
Description
Bos taurus LIM domain only 2 (rhombotin-like 1) (LMO2), mRNA. [Source:RefSeq mRNA;Acc:NM_001076352]
Coordinates
chr15:65405854-65406511:-
Coord C1 exon
chr15:65406347-65406511
Coord A exon
chr15:65406209-65406346
Coord C2 exon
chr15:65405854-65406085
Length
138 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAAG
5' ss Score
3.39
3' ss Seq
TCTCTCTTTGGCGTTTGAAGGGA
3' ss Score
7.3
Exon sequences
Seq C1 exon
GAAAAAGGAAATGAAACCAGAGACAGAGGGAAGCTGAGCGAAAATAGACCTTCCCAAGAGAGGAGGGAGCCGGGGGAGAGAGGCGCGGTGTCCCCTCCCCGCCCCCAGGCCGCCGCCCCCTCCCTGCCCTCGGCGGCGAGCTGCGCGCCGCAACCCCGGCTGAAG
Seq A exon
GTGCGAGGGGCGCGGGGCGGCCGGGCGGGCGCGCACCATCCCCGCGGGCGGCGCGGAGCCGGCGACAGCGCTCGAGCCGAGCCAGACCCGGCGGCGGCGGCGGCGGCGGCGGCGGTGGCGGCGGGACCGGGATGGAAG
Seq C2 exon
GGAGCGCGGTGACTGTCCTTGAGCGCGGAGGGGCGAGCTCGCCGCCAGAGCGCCGGAGCAAGAAGAGGCGCAGGAGCGGCGGCGGCGGCGGCGGCGCCCGAGCACCCGAGGGGGTCCGAGCCCCGGCAGCCGGCCAGCCCCGCGCCACAAAGGGAGCGCCCCCGCCGCCTGGCACGCCACCTCCCTCCCCAATGTCCTCGGCCATCGAGAGGAAGAGCCTGGACCCATCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006951-6-1,7-1-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.143
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
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:
GAAAAAGGAAATGAAACCAGAGACA
R:
GCTCCTGCGCCTCTTCTTG
Band lengths:
242-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development