GgaEX6036729 @ galGal3
Exon Skipping
Gene
ENSGALG00000012123 | PAX6_CHICK
Description
NA
Coordinates
chr5:5258288-5262576:-
Coord C1 exon
chr5:5262411-5262576
Coord A exon
chr5:5259074-5259232
Coord C2 exon
chr5:5258288-5258370
Length
159 bp
Sequences
Splice sites
3' ss Seq
CCACGCTCTCCTTCCCGCAGACG
3' ss Score
12.1
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GTGTCGTCGATAAACAGAGTCCTCCGCAACCTGGCTAGCGAAAAGCAACAGATGGGTGCCGACGGGATGTACGACAAGCTAAGGATGCTGAACGGGCAGACGGGGACATGGGGCACCCGGCCCGGCTGGTATCCCGGCACCTCGGTACCTGGGCAGCCCGCACAAG
Seq A exon
ACGGCTGCCCGCAGCAGGAGGGAGGAGGGGAGAACACCAACTCCATCAGCTCCAATGGGGAAGATTCCGATGAGGCCCAGATGAGACTTCAGCTGAAAAGGAAGCTGCAGAGAAATAGGACATCCTTTACCCAAGAGCAAATCGAAGCCCTTGAGAAAG
Seq C2 exon
AGTTTGAGAGAACCCACTATCCCGATGTGTTTGCGAGAGAGCGACTAGCTGCTAAAATAGACTTGCCTGAAGCAAGGATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012123-'6-10,'6-7,7-10=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (disopred):
C1=0.817 A=0.920 C2=0.579
Domain overlap (PFAM):
C1:
PF0029213=PAX=PD(6.4=14.3)
A:
PF0004624=Homeobox=PU(29.8=31.5)
C2:
PF0004624=Homeobox=FE(47.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGATAAACAGAGTCCTCCGC
R:
GCTTCAGGCAAGTCTATTTTAGCA
Band lengths:
234-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]