D. rerio Gene: rx3 - ENSDARG00000052893 - Danio rerio (zebrafish)

General information

Ensembl IDENSDARG00000052893
Namerx3
Descriptionretinal homeobox gene 3 [Source:ZFIN;Acc:ZDB-GENE-990415-238]
OrganismDanio rerio (zebrafish)
Synonym(s)chk, chokh, eyes missing, eym

Expression

Anat. entity IDAnatomical entityDevelopmental stage(s)Rank scoreExpression scoreSources
UBERON:0004734gastrula
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000017Gastrula:50%-epiboly
  • UBERON:0000109gastrula stage
  • ZFS:0000019Gastrula:Shield
2.03e3
  • 2.03e3
  • 5.05e3
  • 9.26e3
  • 1.13e4
  • 1.45e4
  • 1.86e4
93.20
  • 93.20
  • 83.10
  • 69.01
  • 62.25
  • 51.43
  • 37.74
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000966retina
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000037Larval:Day 5
  • ZFS:0000031Pharyngula:Prim-25
  • UBERON:0000066fully formed stage
  • ZFS:0000035Larval:Protruding-mouth
2.94e3
  • 2.94e3
  • 6.84e3
  • 9.80e3
  • 9.94e3
  • 1.39e4
90.15
  • 90.15
  • 77.09
  • 67.19
  • 66.73
  • 53.31
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001898hypothalamus
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000034Hatching:Pec-fin
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000031Pharyngula:Prim-25
2.99e3
  • 2.99e3
  • 4.27e3
  • 7.47e3
  • 1.36e4
  • 1.49e4
90.00
  • 90.00
  • 85.71
  • 75.00
  • 54.53
  • 49.99
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003071eye primordium
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000023Segmentation:1-4 somites
3.73e3
  • 3.73e3
  • 7.47e3
87.50
  • 87.50
  • 74.99
AEIR
  • AEIR
  • AEIR
UBERON:0003056pre-chordal neural plate
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000020Gastrula:75%-epiboly
4.98e3
  • 4.98e3
  • 1.49e4
83.34
  • 83.34
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0009610forebrain neural plate
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000021Gastrula:90%-epiboly
4.98e3
  • 4.98e3
  • 1.49e4
83.34
  • 83.34
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0000922embryo
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000037Larval:Day 5
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000031Pharyngula:Prim-25
  • UBERON:0004707pharyngula stage
  • UBERON:0000068embryo stage
  • ZFS:0000030Pharyngula:Prim-15
5.15e3
  • 5.15e3
  • 8.11e3
  • 1.09e4
  • 1.11e4
  • 1.16e4
  • 1.20e4
  • 1.25e4
  • 1.31e4
  • 1.32e4
  • 1.35e4
82.77
  • 82.77
  • 72.85
  • 63.66
  • 62.80
  • 61.00
  • 59.74
  • 58.21
  • 56.04
  • 55.74
  • 54.94
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000468multi-cellular organism
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000037Larval:Day 5
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000030Pharyngula:Prim-15
  • UBERON:0000104life cycle
  • ZFS:0000036Larval:Day 4
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000019Gastrula:Shield
5.23e3
  • 5.23e3
  • 5.87e3
  • 7.48e3
  • 9.35e3
  • 1.05e4
  • 1.29e4
  • 1.39e4
  • 1.45e4
  • 1.47e4
  • 1.52e4
  • 1.53e4
  • 1.56e4
82.48
  • 82.48
  • 80.35
  • 74.97
  • 68.70
  • 64.90
  • 56.73
  • 53.41
  • 51.29
  • 50.90
  • 49.01
  • 48.89
  • 47.73
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002329somite
  • ZFS:0000025Segmentation:10-13 somites
6.80e3
  • 6.80e3
77.22
  • 77.22
AEIR
  • AEIR
UBERON:0004128optic vesicle
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000027Segmentation:20-25 somites
8.54e3
  • 8.54e3
  • 1.12e4
  • 1.24e4
  • 1.41e4
71.42
  • 71.42
  • 62.48
  • 58.32
  • 52.92
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003075neural plate
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000019Gastrula:Shield
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000023Segmentation:1-4 somites
8.96e3
  • 8.96e3
  • 1.15e4
  • 1.26e4
  • 1.38e4
  • 1.42e4
  • 1.42e4
69.99
  • 69.99
  • 61.53
  • 57.68
  • 53.83
  • 52.60
  • 52.35
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001890forebrain
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000029Pharyngula:Prim-5
9.96e3
  • 9.96e3
  • 1.38e4
  • 1.49e4
66.67
  • 66.67
  • 53.83
  • 49.97
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0006222future diencephalon
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000023Segmentation:1-4 somites
1.03e4
  • 1.03e4
  • 1.37e4
65.37
  • 65.37
  • 54.15
AEIR
  • AEIR
  • AEIR
UBERON:0003077paraxial mesoderm
  • ZFS:0000025Segmentation:10-13 somites
1.07e4
  • 1.07e4
64.25
  • 64.25
AEIR
  • AEIR
UBERON:0007135neural keel
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000019Gastrula:Shield
1.09e4
  • 1.09e4
  • 1.19e4
  • 1.19e4
  • 1.34e4
63.63
  • 63.63
  • 59.99
  • 59.99
  • 54.99
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0006238future brain
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000019Gastrula:Shield
1.19e4
  • 1.19e4
  • 1.19e4
  • 1.19e4
  • 1.34e4
59.99
  • 59.99
  • 59.99
  • 59.99
  • 54.99
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000307blastula
  • ZFS:0000016Blastula:30%-epiboly
  • ZFS:0000011Blastula:1k-cell
  • ZFS:0000015Blastula:Dome
1.24e4
  • 1.24e4
  • 1.58e4
  • 1.73e4
58.39
  • 58.39
  • 47.06
  • 42.08
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000955brain
  • ZFS:0000031Pharyngula:Prim-25
  • UBERON:0000066fully formed stage
1.27e4
  • 1.27e4
  • 1.96e4
57.58
  • 57.58
  • 34.38
AEIR
  • AEIR
  • AEIR
UBERON:0001893telencephalon
  • ZFS:0000029Pharyngula:Prim-5
1.31e4
  • 1.31e4
56.22
  • 56.22
AEIR
  • AEIR
UBERON:0002548larva
  • ZFS:0000035Larval:Protruding-mouth
  • ZFS:0000037Larval:Day 5
  • UBERON:0000069larval stage
1.31e4
  • 1.31e4
  • 1.37e4
  • 1.51e4
56.08
  • 56.08
  • 54.23
  • 49.32
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001894diencephalon
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000025Segmentation:10-13 somites
1.33e4
  • 1.33e4
  • 1.36e4
  • 1.49e4
55.53
  • 55.53
  • 54.32
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002286third ventricle
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
1.49e4
  • 1.49e4
  • 1.49e4
50.00
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0008902lateral recess of third vetricle
  • ZFS:0000033Hatching:Long-pec
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
ZFA:0000634caudal hypothalamic zone (Danio)
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
1.49e4
  • 1.49e4
  • 1.49e4
50.00
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0001791inner nuclear layer of retina
  • ZFS:0000034Hatching:Pec-fin
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000033Hatching:Long-pec
1.49e4
  • 1.49e4
  • 1.49e4
  • 1.49e4
50.00
  • 50.00
  • 50.00
  • 49.98
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001928preoptic area
  • ZFS:0000029Pharyngula:Prim-5
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:2007026forebrain neural keel
  • ZFS:0000022Gastrula:Bud
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0003059presomitic mesoderm
  • ZFS:0000025Segmentation:10-13 somites
1.56e4
  • 1.56e4
47.79
  • 47.79
AEIR
  • AEIR
UBERON:0019248early embryo
  • UBERON:0000107cleavage stage
1.74e4
  • 1.74e4
41.65
  • 41.65
AEIR
  • AEIR
UBERON:0000473testis
  • UBERON:0000066fully formed stage
2.09e4
  • 2.09e4
30.07
  • 30.07
AEIR
  • AEIR
Sources
AAffymetrix
EEST
IIn Situ
RRNA-Seq
data
no data
Rank scores
3.25e4lightgrey: low confidence scores

important score variation

Rank scores of expression calls are normalized across genes, conditions and species. Low score means that the gene is highly expressed in the condition. Max rank score in all species: 4.10e4. Min rank score varies across species.

Expression scores of expression calls use the minimum and maximum Rank of the species to normalize the expression to a value between 0 and 100. Low score means that the gene is lowly expressed in the condition.

Sources of annotations to anatomy and development:
  • Affymetrix data: Bgee
  • EST data: Bgee
  • In situ hybridization data: ZFIN
  • RNA-Seq data: Bgee
Sources of raw data:

Cross-references

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