BtaEX0025997 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000004561 | PAX6
Description
Bos taurus paired box 6 (PAX6), mRNA. [Source:RefSeq mRNA;Acc:NM_001040645]
Coordinates
chr15:63368087-63372994:-
Coord C1 exon
chr15:63372934-63372994
Coord A exon
chr15:63369235-63369365
Coord C2 exon
chr15:63368087-63368302
Length
131 bp
Sequences
Splice sites
3' ss Seq
TCTCCTCTCCCTTTCTTCAGGTC
3' ss Score
13.84
5' ss Seq
CAGGTGATC
5' ss Score
4.28
Exon sequences
Seq C1 exon
AGCCCCATATTCGAGCCCCGTGGGATACCGAGGCCCCCAGCCAGCGCCAGCATGCAGAACA
Seq A exon
GTCACAGCGGAGTGAATCAGCTCGGTGGTGTCTTTGTCAACGGGCGGCCACTGCCGGACTCCACCCGGCAGAAGATCGTAGAGCTAGCTCACAGCGGGGCCCGGCCGTGCGACATTTCCCGAATTCTGCAG
Seq C2 exon
GTGTCCAACGGATGTGTGAGTAAAATTCTGGGCAGGTATTACGAGACTGGCTCCATCAGACCCAGGGCAATCGGTGGTAGTAAACCGAGAGTAGCGACTCCAGAAGTTGTAAGCAAAATAGCCCAGTATAAGCGGGAGTGCCCGTCCATCTTTGCTTGGGAAATCCGAGACAGATTACTGTCCGAGGGGGTCTGTACCAACGATAACATACCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004561-'10-6,'10-4,11-6
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=0.739 C2=0.000
Domain overlap (PFAM):
C1:
PF0029213=PAX=PU(0.1=0.0)
A:
PF0029213=PAX=PU(34.4=97.7)
C2:
PF0029213=PAX=FE(56.8=100)
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:
TATTCGAGCCCCGTGGGATAC
R:
ACCCCCTCGGACAGTAATCTG
Band lengths:
245-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development