BtaEX0017352 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000024341 | HOXA6
Description
homeobox A6 [Source:HGNC Symbol;Acc:HGNC:5107]
Coordinates
chr4:69344738-69351620:+
Coord C1 exon
chr4:69344738-69345009
Coord A exon
chr4:69349884-69349998
Coord C2 exon
chr4:69351373-69351620
Length
115 bp
Sequences
Splice sites
3' ss Seq
TGCACTTTTCTCCCGAGCAGCAG
3' ss Score
5.34
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
Exon sequences
Seq C1 exon
CCTGCCTGCTTCGGAGCTCAGCCTTCCAGCCAGGCTCGGCTGTGCTTTGTCCAGCGATGGCGAGCGAGACGAGGCCCCGGCCCGGCCCGGCCCGGCCGCTCCCGCTGGAGGTGGGGTGTGCCCAGTTCCCGGCGCCGCGGCGGTCGCTTTGCAACTCGCAACCTGGCTAATTTCCTGCGTCCTCTAGCACCACGAAGGACAATTCGTCTCCCCGGGCTGCCCAAGCGACAGCTGTCAGAGGGACTGGAGCTTCTGGGAACCGCCATCTGAAG
Seq A exon
CAGTACAAACCCGACAGCAGCAGCGTGCCGGGCAAAGCCCTCCATGACGAAGGCACCGACCGGAAGTACACGAGCCCTGTTTACCCCTGGATGCAGCGGATGAACTCCTGCGCGG
Seq C2 exon
GTGCTGTGTATGGGAGTCACGGGCGCCGAGGCCGCCAGACCTACACGCGCTACCAGACGCTGGAGCTGGAGAAGGAGTTCCACTTCAACCGCTACCTGACGCGGCGCCGCCGCATCGAAATAGCCAACGCGCTCTGCCTCACCGAGCGCCAGATCAAGATCTGGTTCCAGAACCGCCGCATGAAGTGGAAAAAGGAAAATAAACTCATCAATTCCACACAACCCAGCGGGGAGGACGCTGAGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024341_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=NA A=0.243 C2=0.277
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0004624=Homeobox=WD(100=68.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTCTAGCACCACGAAGGAC
R:
CAGATCTTGATCTGGCGCTCG
Band lengths:
256-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development