|
Display additional annotations [+]
Gene |
Clone |
Species |
Stages |
Anatomy |
six3
|
|
tropicalis
|
NF stage 15
|
retina
,
pre-chordal neural plate
,
eye
,
eye primordium
,
optic vesicle
|
six3
|
|
tropicalis
|
NF stage 24
|
retina
,
eye
,
optic vesicle
|
six6
|
|
tropicalis
|
NF stage 15
|
retina
,
pre-chordal neural plate
,
eye
,
eye primordium
,
optic vesicle
|
six6
|
|
tropicalis
|
NF stage 24
|
retina
,
brain
,
forebrain
,
eye
,
optic vesicle
|
pax6
|
|
tropicalis
|
NF stage 15
|
diencephalon
,
pre-chordal neural plate
,
chordal neural plate
,
eye primordium
,
optic vesicle
,
[+]
|
pax6
|
|
tropicalis
|
NF stage 24
|
lens
,
retina
,
brain
,
diencephalon
,
spinal cord
,
[+]
|
otx2
|
|
tropicalis
|
NF stage 15
|
diencephalon
,
pre-chordal neural plate
,
eye primordium
|
otx2
|
|
tropicalis
|
NF stage 24
|
retina
,
brain
,
diencephalon
,
pre-chordal neural plate
,
eye
,
[+]
|
lhx2
|
|
tropicalis
|
NF stage 15
|
retina
,
pre-chordal neural plate
,
eye
,
eye primordium
,
optic vesicle
|
lhx2
|
|
tropicalis
|
NF stage 24
|
retina
,
brain
,
diencephalon
,
spinal cord
,
eye
,
[+]
|
|
|
Fig. 2. Key eye field transcription factor (EFTF) expression is unaffected in neural plate stage embryos. (A) The expression patterns and levels of rax, pax6, otx2, six3, lhx2, and six6 assayed by in situ hybridization in neural plate stage (St. 15) embryos with at least one wildtype allele versus homozygous mutant embryos reveal that key EFTF expression levels are unaffected in the rax mutant. Presumptive retinal regions indicated (arrows). (B) By early tailbud stage (St. 24), down-regulation of EFTFs can be detected in regions where the retina normally forms (arrows). (C) RNA-Seq analysis comparing wildtype and mutant St. 15 anterior neural plates confirms that EFTFs are not significantly affected in early stage rax mutant embryos. Fold change calculated using normalized read counts averaged from triplicate pooled samples. q-Values calculated using analysis utility Cuffdiff, part of the Cufflinks software package ( Trapnell et al., 2010), with a False Discovery Rate (FDR) of 0.05. High q-values indicate that listed genes are not significantly affected in neural plate stage rax mutant embryos. |