BtaEX0020362 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000012025 | LMX1A
Description
Bos taurus LIM homeobox transcription factor 1, alpha (LMX1A), mRNA. [Source:RefSeq mRNA;Acc:NM_001191325]
Coordinates
chr3:3863179-3865786:+
Coord C1 exon
chr3:3863179-3863349
Coord A exon
chr3:3865088-3865163
Coord C2 exon
chr3:3865626-3865786
Length
76 bp
Sequences
Splice sites
3' ss Seq
AACCTTCCTTTCCTTTGCAGTAC
3' ss Score
9.93
5' ss Seq
TTCGTGAGC
5' ss Score
3.45
Exon sequences
Seq C1 exon
CTCAGACAAACGGTGGTGGGAGCGCTGGCATGGAAGGGATCATGAACCCCTACACGGCTCTGCCCACCTCACAGCAGCTCCTGGCCATCGAACAGAGTGTCTACAGCTCAGATCCCTTCCGACAGGGGCTCACCCCACCCCAGATGCCTGGAGACCACATGCACCCCTATG
Seq A exon
TACAAATCTGGGGAAACAGCTGGCACTCAGTATGTTTGTGCTGTTTGAAAGGACAAGTATTATCACCAGTGGATTC
Seq C2 exon
GTGCTGAGCCCCTCTTCCACGAGCTGGACAGTGAGGACACCTCCCTCAGTAACCTGGGTGACTGTTTCCTAGCAACCTCAGAAGCCGGGCCCCTGCAGGCCAGAGTGGGAAACCCCATTGATCATCTGTACTCCATGCAGAATTCTTACTTCACCTCTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012025_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.629 A=0.000 C2=0.436
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Inclusion Isoform:
ENSBTAT00000015947fB3857
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:
CTGGCCATCGAACAGAGTGTC
R:
CGGCTTCTGAGGTTGCTAGGA
Band lengths:
178-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development