GgaEX0018236 @ galGal3
Exon Skipping
Gene
ENSGALG00000012123 | PAX6_CHICK
Description
NA
Coordinates
chr5:5262939-5264233:-
Coord C1 exon
chr5:5264103-5264233
Coord A exon
chr5:5263248-5263289
Coord C2 exon
chr5:5262939-5263154
Length
42 bp
Sequences
Splice sites
3' ss Seq
GGTATATTTTTGTGTTATAGACC
3' ss Score
6.86
5' ss Seq
AACGTAAGC
5' ss Score
7.35
Exon sequences
Seq C1 exon
GTCACAGCGGCGTGAACCAGCTCGGCGGGGTGTTCGTCAACGGGAGGCCGCTGCCCGACTCCACGCGGCAGAAGATCGTGGAACTCGCGCACAGCGGCGCGCGGCCGTGCGACATCTCCCGAATCCTGCAG
Seq A exon
ACCCATGCAGATGCAAAAGTCCAAGTGCTGGACAATCAAAAC
Seq C2 exon
GTGTCGAATGGATGTGTGAGTAAAATTTTGGGCAGGTATTACGAAACTGGCTCCATCAGGCCCAGGGCGATCGGAGGTAGTAAGCCGAGAGTAGCGACTCCCGAAGTTGTAAGCAAAATAGCGCAGTATAAACGAGAGTGCCCCTCCATCTTTGCGTGGGAGATTCGAGACAGATTACTCTCGGAGGGGGTCTGTACCAACGATAACATACCCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012123_CASSETTE1
Average complexity
S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (Ref)
Show structural model
Features
Disorder rate (disopred):
C1=0.109 A=0.000 C2=0.005
Domain overlap (PFAM):
C1:
PF0029213=PAX=PU(34.4=91.5)
A:
PF0029213=PAX=FE(9.4=100)
C2:
PF0029213=PAX=FE(56.8=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGAAGATCGTGGAACTCGC
R:
TTACTACCTCCGATCGCCCTG
Band lengths:
147-189
Functional annotations
There are 8 annotated functions for this event
PMID: 7958875
Inclusion isoform exhibits unique DNA-binding properties in its paired domain. Unlike other paired d... [Show more]
PMID: 8640214
The two PAX6 isoforms cooperatively act in the development of the posterior segment of the eye in hu... [Show more]
PMID: 15677484
Overexpression of either human isoform in early stage chicken embryos increases retinal cell prolife... [Show more]
PMID: 26899008
Structural variations in the PAI domain define two major PAX6 isoforms, isoform-a (PAX6-a) and isofo... [Show more]
PMID: 16725027
Both isoforms caused an up-regulation of endogenous Pax6 expression in cells with (Neuro2A) or witho... [Show more]
PMID: 22384097
A change in morphology of the stably transfected Pax6 and Pax6(5a) cells was observed, and the Pax6 ... [Show more]
PMID: 22384097
The Pax6(5a) protein differs from Pax6 by having a 14 amino acid insert in the paired domain, causin... [Show more]
PMID: 25029272
[Negative results]. By the use of bioinformatics and electrophoretic mobility shift assay (EMSA) the... [Show more]