D. rerio Gene: lhx1a - ENSDARG00000014018 - Danio rerio (zebrafish)

General information

Ensembl IDENSDARG00000014018
Namelhx1a
DescriptionLIM homeobox 1a [Source:ZFIN;Acc:ZDB-GENE-980526-347]
OrganismDanio rerio (zebrafish)
Synonym(s)lhx1, lim1, lim1a, wu:fe25d04, wu:fj36b06
Orthologs(s)16 orthologs

Expression

Anat. entity IDAnatomical entityDevelopmental stage(s)Rank scoreExpression scoreSources
UBERON:0000922embryo
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000037Larval:Day 5
  • ZFS:0000031Pharyngula:Prim-25
  • UBERON:0000068embryo stage
  • UBERON:0004707pharyngula stage
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000026Segmentation:14-19 somites
1.30e3
  • 1.30e3
  • 2.17e3
  • 4.07e3
  • 5.76e3
  • 9.61e3
  • 1.13e4
  • 1.23e4
  • 1.26e4
  • 1.45e4
  • 1.48e4
95.64
  • 95.64
  • 92.72
  • 86.36
  • 80.73
  • 67.81
  • 62.00
  • 58.85
  • 57.78
  • 51.40
  • 50.59
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000033head
  • ZFS:0000037Larval:Day 5
  • ZFS:0000029Pharyngula:Prim-5
  • UBERON:0000066fully formed stage
1.78e3
  • 1.78e3
  • 1.12e4
  • 1.44e4
94.03
  • 94.03
  • 62.50
  • 51.89
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0004734gastrula
  • ZFS:0000019Gastrula:Shield
  • UBERON:0000109gastrula stage
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000017Gastrula:50%-epiboly
  • ZFS:0000021Gastrula:90%-epiboly
1.96e3
  • 1.96e3
  • 7.39e3
  • 8.60e3
  • 9.83e3
  • 1.06e4
  • 1.18e4
93.45
  • 93.45
  • 75.26
  • 71.19
  • 67.09
  • 64.52
  • 60.62
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003068axial mesoderm
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000023Segmentation:1-4 somites
2.49e3
  • 2.49e3
  • 2.49e3
  • 4.27e3
91.67
  • 91.67
  • 91.67
  • 85.71
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000955brain
  • UBERON:0000066fully formed stage
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000029Pharyngula:Prim-5
  • UBERON:0000104life cycle
3.65e3
  • 3.65e3
  • 7.63e3
  • 1.19e4
  • 1.49e4
87.77
  • 87.77
  • 74.44
  • 59.99
  • 49.94
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002548larva
  • ZFS:0000037Larval:Day 5
  • ZFS:0000035Larval:Protruding-mouth
  • UBERON:0000069larval stage
3.89e3
  • 3.89e3
  • 5.85e3
  • 5.92e3
86.97
  • 86.97
  • 80.42
  • 80.20
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000970eye
  • ZFS:0000031Pharyngula:Prim-25
5.83e3
  • 5.83e3
80.47
  • 80.47
AEIR
  • AEIR
UBERON:0000468multi-cellular organism
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000037Larval:Day 5
  • ZFS:0000019Gastrula:Shield
  • ZFS:0000036Larval:Day 4
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000021Gastrula:90%-epiboly
  • UBERON:0000106zygote stage
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000040Larval:Days 14-20
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000026Segmentation:14-19 somites
  • UBERON:0000104life cycle
  • UBERON:0000068embryo stage
6.37e3
  • 6.37e3
  • 6.77e3
  • 7.03e3
  • 1.02e4
  • 1.12e4
  • 1.14e4
  • 1.15e4
  • 1.15e4
  • 1.15e4
  • 1.16e4
  • 1.18e4
  • 1.19e4
  • 1.20e4
  • 1.41e4
  • 1.50e4
78.68
  • 78.68
  • 77.35
  • 76.46
  • 65.95
  • 62.56
  • 61.93
  • 61.64
  • 61.46
  • 61.38
  • 61.17
  • 60.58
  • 60.06
  • 59.90
  • 52.86
  • 49.80
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000465material anatomical entity
  • ZFS:0000016Blastula:30%-epiboly
  • ZFS:0000018Gastrula:Germ-ring
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000017Gastrula:50%-epiboly
  • ZFS:0000019Gastrula:Shield
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000026Segmentation:14-19 somites
6.64e3
  • 6.64e3
  • 6.89e3
  • 7.97e3
  • 7.97e3
  • 8.54e3
  • 8.79e3
  • 8.96e3
  • 9.13e3
  • 9.13e3
  • 9.13e3
  • 9.71e3
  • 9.96e3
77.77
  • 77.77
  • 76.92
  • 73.32
  • 73.32
  • 71.41
  • 70.57
  • 69.98
  • 69.43
  • 69.43
  • 69.43
  • 67.48
  • 66.65
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
CL:0000099interneuron
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000029Pharyngula:Prim-5
7.47e3
  • 7.47e3
  • 1.49e4
  • 1.49e4
75.00
  • 75.00
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003064intermediate mesoderm
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
7.47e3
  • 7.47e3
  • 1.19e4
  • 1.49e4
75.00
  • 75.00
  • 60.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000966retina
  • ZFS:0000037Larval:Day 5
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000033Hatching:Long-pec
  • UBERON:0000066fully formed stage
7.79e3
  • 7.79e3
  • 8.68e3
  • 9.80e3
  • 1.34e4
73.91
  • 73.91
  • 70.95
  • 67.18
  • 55.29
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:2000083ventral mesoderm
  • ZFS:0000023Segmentation:1-4 somites
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
7.97e3
  • 7.97e3
  • 7.97e3
  • 8.54e3
73.32
  • 73.32
  • 73.32
  • 71.42
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001891midbrain
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000032Pharyngula:High-pec
8.30e3
  • 8.30e3
  • 8.40e3
  • 9.71e3
  • 1.08e4
  • 1.10e4
  • 1.14e4
  • 1.17e4
72.21
  • 72.21
  • 71.86
  • 67.48
  • 63.87
  • 63.32
  • 61.75
  • 60.70
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002240spinal cord
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000032Pharyngula:High-pec
8.54e3
  • 8.54e3
  • 9.71e3
  • 9.71e3
  • 1.15e4
  • 1.18e4
  • 1.22e4
  • 1.23e4
71.41
  • 71.41
  • 67.48
  • 67.48
  • 61.34
  • 60.50
  • 59.06
  • 58.80
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002028hindbrain
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000032Pharyngula:High-pec
8.96e3
  • 8.96e3
  • 9.07e3
  • 9.25e3
  • 1.17e4
  • 1.20e4
  • 1.20e4
  • 1.26e4
69.98
  • 69.98
  • 69.62
  • 69.03
  • 60.84
  • 59.98
  • 59.98
  • 57.87
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002328notochord
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000023Segmentation:1-4 somites
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000029Pharyngula:Prim-5
8.97e3
  • 8.97e3
  • 1.20e4
  • 1.22e4
  • 1.24e4
  • 1.34e4
69.98
  • 69.98
  • 59.98
  • 59.06
  • 58.33
  • 54.97
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001049neural tube
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
9.10e3
  • 9.10e3
  • 9.71e3
  • 9.71e3
69.55
  • 69.55
  • 67.48
  • 67.48
AEIR
  • AEIR
  • AEIR
  • AEIR
CL:0000540neuron
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000032Pharyngula:High-pec
  • ZFS:0000033Hatching:Long-pec
9.19e3
  • 9.19e3
  • 1.05e4
  • 1.05e4
  • 1.09e4
  • 1.21e4
  • 1.21e4
  • 1.28e4
  • 1.29e4
69.22
  • 69.22
  • 64.98
  • 64.98
  • 63.61
  • 59.36
  • 59.36
  • 57.13
  • 56.65
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000307blastula
  • ZFS:0000015Blastula:Dome
  • ZFS:0000011Blastula:1k-cell
  • ZFS:0000016Blastula:30%-epiboly
  • ZFS:0000009Blastula:256-cell
  • ZFS:0000014Blastula:Sphere
9.35e3
  • 9.35e3
  • 9.83e3
  • 1.02e4
  • 1.22e4
  • 1.22e4
68.69
  • 68.69
  • 67.08
  • 65.91
  • 59.24
  • 59.05
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000473testis
  • UBERON:0000066fully formed stage
9.46e3
  • 9.46e3
68.33
  • 68.33
AEIR
  • AEIR
UBERON:0000992female gonad
  • UBERON:0000066fully formed stage
  • UBERON:0000104life cycle
9.65e3
  • 9.65e3
  • 1.50e4
67.70
  • 67.70
  • 49.89
AEIR
  • AEIR
  • AEIR
UBERON:0001890forebrain
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000032Pharyngula:High-pec
  • ZFS:0000030Pharyngula:Prim-15
9.67e3
  • 9.67e3
  • 9.67e3
  • 9.96e3
  • 1.10e4
  • 1.15e4
  • 1.17e4
  • 1.26e4
67.63
  • 67.63
  • 67.63
  • 66.65
  • 63.32
  • 61.53
  • 60.70
  • 57.68
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002100trunk
  • ZFS:0000029Pharyngula:Prim-5
1.07e4
  • 1.07e4
64.28
  • 64.28
AEIR
  • AEIR
ZFA:0001673pronephric podocyte (Danio)
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000031Pharyngula:Prim-25
1.12e4
  • 1.12e4
  • 1.19e4
  • 1.19e4
62.50
  • 62.50
  • 60.00
  • 60.00
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0005721pronephric mesoderm
  • ZFS:0000023Segmentation:1-4 somites
  • ZFS:0000024Segmentation:5-9 somites
1.16e4
  • 1.16e4
  • 1.16e4
61.10
  • 61.10
  • 61.10
AEIR
  • AEIR
  • AEIR
ZFA:0000092axis (Danio)
  • ZFS:0000019Gastrula:Shield
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000017Gastrula:50%-epiboly
  • ZFS:0000018Gastrula:Germ-ring
  • ZFS:0000021Gastrula:90%-epiboly
1.16e4
  • 1.16e4
  • 1.16e4
  • 1.16e4
  • 1.23e4
  • 1.23e4
  • 1.23e4
61.09
  • 61.09
  • 61.09
  • 61.09
  • 58.80
  • 58.80
  • 58.80
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003062primitive knot
  • ZFS:0000019Gastrula:Shield
1.22e4
  • 1.22e4
59.08
  • 59.08
AEIR
  • AEIR
UBERON:0001894diencephalon
  • ZFS:0000033Hatching:Long-pec
1.25e4
  • 1.25e4
58.31
  • 58.31
AEIR
  • AEIR
UBERON:0007010cleaving embryo
  • ZFS:0000005Cleavage:16-cell
1.26e4
  • 1.26e4
57.70
  • 57.70
AEIR
  • AEIR
UBERON:0005068neural rod
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000024Segmentation:5-9 somites
1.26e4
  • 1.26e4
  • 1.49e4
57.68
  • 57.68
  • 49.99
AEIR
  • AEIR
  • AEIR
UBERON:0004879marginal zone of embryo
  • ZFS:0000019Gastrula:Shield
1.34e4
  • 1.34e4
55.24
  • 55.24
AEIR
  • AEIR
UBERON:0003077paraxial mesoderm
  • ZFS:0000025Segmentation:10-13 somites
1.34e4
  • 1.34e4
54.99
  • 54.99
AEIR
  • AEIR
UBERON:0001898hypothalamus
  • ZFS:0000030Pharyngula:Prim-15
1.34e4
  • 1.34e4
54.99
  • 54.99
AEIR
  • AEIR
UBERON:0002481bone tissue
  • UBERON:0000066fully formed stage
1.40e4
  • 1.40e4
53.19
  • 53.19
AEIR
  • AEIR
UBERON:0019248early embryo
  • UBERON:0000107cleavage stage
1.40e4
  • 1.40e4
53.12
  • 53.12
AEIR
  • AEIR
UBERON:0001893telencephalon
  • ZFS:0000030Pharyngula:Prim-15
1.42e4
  • 1.42e4
52.60
  • 52.60
AEIR
  • AEIR
UBERON:0009620tail bud paraxial mesoderm
  • ZFS:0000027Segmentation:20-25 somites
1.47e4
  • 1.47e4
50.69
  • 50.69
AEIR
  • AEIR
CL:0000534primary interneuron
  • ZFS:0000029Pharyngula:Prim-5
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0010537mesonephric nephron progenitor
  • ZFS:0000039Larval:Days 7-13
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
ZFA:0005247CiA (Danio)
  • ZFS:0000029Pharyngula:Prim-5
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
CL:0005000spinal cord interneuron
  • ZFS:0000026Segmentation:14-19 somites
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0001900ventral thalamus
  • ZFS:0000030Pharyngula:Prim-15
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0000203pallium
  • ZFS:0000029Pharyngula:Prim-5
1.49e4
  • 1.49e4
49.99
  • 49.99
AEIR
  • AEIR
UBERON:0002415tail
  • UBERON:0000066fully formed stage
1.50e4
  • 1.50e4
49.79
  • 49.79
AEIR
  • AEIR
UBERON:0002113kidney
  • UBERON:0000066fully formed stage
1.51e4
  • 1.51e4
49.36
  • 49.36
AEIR
  • AEIR
UBERON:0002199integument
  • UBERON:0000066fully formed stage
1.77e4
  • 1.77e4
40.77
  • 40.77
AEIR
  • AEIR
UBERON:0002385muscle tissue
  • UBERON:0000066fully formed stage
1.78e4
  • 1.78e4
40.54
  • 40.54
AEIR
  • AEIR
UBERON:0000948heart
  • ZFS:0000036Larval:Day 4
1.92e4
  • 1.92e4
35.78
  • 35.78
AEIR
  • AEIR
UBERON:0007132head kidney
  • UBERON:0000066fully formed stage
1.95e4
  • 1.95e4
34.73
  • 34.73
AEIR
  • AEIR
UBERON:0002107liver
  • UBERON:0000066fully formed stage
2.30e4
  • 2.30e4
22.96
  • 22.96
AEIR
  • AEIR
UBERON:0000014zone of skin
  • UBERON:0000066fully formed stage
2.42e4
  • 2.42e4
18.92
  • 18.92
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:

Orthologs

Cross-references

EnsemblENSDARG00000014018 (lhx1a)
ZFINZDB-GENE-980526-347 (lhx1a)
EMBLAL935164, BC162396, BC162664, L37802
Uniprot/SPTREMBLB3DGH2, B3DGH2_DANRE, E9QII0, E9QII0_DANRE
Uniprot/SWISSPROTLHX1_DANRE, Q90476

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