DreALTD0013564-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000100398 | pax7a
Description
paired box 7a [Source:ZFIN;Acc:ZDB-GENE-990415-201]
Coordinates
chr11:40654102-40654724:+
Coord C1 exon
chr11:40654102-40654231
Coord A exon
chr11:40654232-40654246
Coord C2 exon
chr11:40654596-40654724
Length
15 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
TTTTTCATCTCTCTTTATAGTTA
3' ss Score
10.22
Exon sequences
Seq C1 exon
CAAGTTGCAACACCCGACGTTGAAAAGAGAATTGAGGAATACAAACGTGAGAATCCAGGGATGTTCAGCTGGGAAATCCGGGATAAGTTGCTGAAGGACGGAGTGTGTGACAGAGGCACGGTTCCTTCAG
Seq A exon
GTGAGGCCTCTTCCG
Seq C2 exon
TTAGCTCCATTAGTCGGGTTTTGAGAGCTCGCTTTGGCAAGAAAGATGACGATGACGAGTGTGATAAAAAAGATGAAGACGGAGAAAAGAAAACCAAGCACAGCATTGACGGGATTCTCGGGGATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100398-2-2,3-2-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.875
Domain overlap (PFAM):
C1:
PF0029213=PAX=FE(34.1=100)
A:
NA
C2:
PF0029213=PAX=PD(6.1=18.2)
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCTGGGAAATCCGGGATA
R:
TGCCAAAGCGAGCTCTCAAAA
Band lengths:
105-120
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]