D. rerio Gene: cxcl12a - ENSDARG00000037116 - Danio rerio (zebrafish)

General information

Ensembl IDENSDARG00000037116
Namecxcl12a
Descriptionchemokine (C-X-C motif) ligand 12a (stromal cell-derived factor 1) [Source:ZFIN;Acc:ZDB-GENE-030318-1]
OrganismDanio rerio (zebrafish)
Synonym(s)cxcl12, sdf-1, sdf-1a, sdf1a, unm t30516, unm_t30516, wu:fa55e10, wu:fc16h12, wu:fj84c02
Orthologs(s)14 orthologs
Paralog(s)1 paralogs

Expression

Anat. entity IDAnatomical entityDevelopmental stage(s)Rank scoreExpression scoreSources
UBERON:0007132head kidney
  • UBERON:0000066fully formed stage
138
  • 138
99.54
  • 99.54
AEIR
  • AEIR
UBERON:0002106spleen
  • UBERON:0000066fully formed stage
335
  • 335
98.88
  • 98.88
AEIR
  • AEIR
UBERON:0002481bone tissue
  • UBERON:0000066fully formed stage
405
  • 405
98.65
  • 98.65
AEIR
  • AEIR
UBERON:0000206pharyngeal gill
  • UBERON:0000066fully formed stage
469
  • 469
98.43
  • 98.43
AEIR
  • AEIR
UBERON:0000033head
  • UBERON:0000066fully formed stage
  • ZFS:0000037Larval:Day 5
  • ZFS:0000035Larval:Protruding-mouth
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000030Pharyngula:Prim-15
552
  • 552
  • 3.12e3
  • 3.73e3
  • 7.47e3
  • 1.49e4
98.15
  • 98.15
  • 89.57
  • 87.50
  • 75.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000014zone of skin
  • UBERON:0000066fully formed stage
763
  • 763
97.45
  • 97.45
AEIR
  • AEIR
UBERON:0006860swim bladder
  • UBERON:0000066fully formed stage
1.24e3
  • 1.24e3
95.84
  • 95.84
AEIR
  • AEIR
UBERON:0002385muscle tissue
  • UBERON:0000066fully formed stage
1.80e3
  • 1.80e3
93.99
  • 93.99
AEIR
  • AEIR
UBERON:0000160intestine
  • UBERON:0000066fully formed stage
2.06e3
  • 2.06e3
93.10
  • 93.10
AEIR
  • AEIR
CL:0000094granulocyte
  • UBERON:0000066fully formed stage
2.11e3
  • 2.11e3
92.94
  • 92.94
AEIR
  • AEIR
UBERON:4000164caudal fin
  • UBERON:0000066fully formed stage
  • ZFS:0000033Hatching:Long-pec
2.28e3
  • 2.28e3
  • 7.43e3
92.38
  • 92.38
  • 75.13
AEIR
  • AEIR
  • AEIR
UBERON:0000061anatomical structure
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000016Blastula:30%-epiboly
  • ZFS:0000017Gastrula:50%-epiboly
2.49e3
  • 2.49e3
  • 4.98e3
  • 1.49e4
  • 1.49e4
91.67
  • 91.67
  • 83.34
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001630muscle organ
  • UBERON:0000066fully formed stage
2.65e3
  • 2.65e3
91.12
  • 91.12
AEIR
  • AEIR
UBERON:0000468multi-cellular organism
  • ZFS:0000037Larval:Day 5
  • ZFS:0000036Larval:Day 4
  • ZFS:0000040Larval:Days 14-20
  • ZFS:0000042Juvenile:Days 30-44
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000019Gastrula:Shield
2.71e3
  • 2.71e3
  • 3.27e3
  • 3.79e3
  • 4.52e3
  • 4.89e3
  • 6.10e3
  • 6.63e3
  • 6.76e3
  • 7.35e3
  • 7.96e3
  • 8.13e3
  • 8.13e3
  • 8.66e3
90.92
  • 90.92
  • 89.07
  • 87.32
  • 84.86
  • 83.62
  • 79.58
  • 77.79
  • 77.38
  • 75.40
  • 73.34
  • 72.78
  • 72.77
  • 71.01
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000922embryo
  • ZFS:0000037Larval:Day 5
  • UBERON:0004707pharyngula stage
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000029Pharyngula:Prim-5
  • UBERON:0000068embryo stage
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000026Segmentation:14-19 somites
2.90e3
  • 2.90e3
  • 4.13e3
  • 4.29e3
  • 5.48e3
  • 5.74e3
  • 7.29e3
  • 7.42e3
  • 7.72e3
  • 8.37e3
  • 9.03e3
90.29
  • 90.29
  • 86.16
  • 85.64
  • 81.66
  • 80.80
  • 75.59
  • 75.16
  • 74.15
  • 71.96
  • 69.76
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002548larva
  • ZFS:0000037Larval:Day 5
  • UBERON:0000069larval stage
  • ZFS:0000035Larval:Protruding-mouth
2.96e3
  • 2.96e3
  • 3.15e3
  • 4.67e3
90.08
  • 90.08
  • 89.45
  • 84.35
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000955brain
  • UBERON:0000066fully formed stage
  • ZFS:0000031Pharyngula:Prim-25
3.55e3
  • 3.55e3
  • 6.09e3
88.11
  • 88.11
  • 79.59
AEIR
  • AEIR
  • AEIR
UBERON:0004734gastrula
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000019Gastrula:Shield
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000020Gastrula:75%-epiboly
  • UBERON:0000109gastrula stage
  • ZFS:0000017Gastrula:50%-epiboly
3.61e3
  • 3.61e3
  • 4.94e3
  • 9.15e3
  • 9.25e3
  • 1.05e4
  • 1.06e4
87.91
  • 87.91
  • 83.46
  • 69.37
  • 69.03
  • 64.69
  • 64.45
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003901horizontal septum
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000033Hatching:Long-pec
3.73e3
  • 3.73e3
  • 9.96e3
  • 1.49e4
  • 1.49e4
87.50
  • 87.50
  • 66.67
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002329somite
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000026Segmentation:14-19 somites
3.91e3
  • 3.91e3
  • 9.34e3
  • 1.34e4
  • 1.34e4
  • 1.39e4
86.93
  • 86.93
  • 68.73
  • 54.97
  • 54.97
  • 53.41
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000970eye
  • ZFS:0000031Pharyngula:Prim-25
4.01e3
  • 4.01e3
86.59
  • 86.59
AEIR
  • AEIR
UBERON:0003080anterior neural tube
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000029Pharyngula:Prim-5
4.98e3
  • 4.98e3
  • 7.47e3
  • 7.47e3
83.34
  • 83.34
  • 75.00
  • 75.00
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000948heart
  • UBERON:0000066fully formed stage
  • ZFS:0000036Larval:Day 4
5.22e3
  • 5.22e3
  • 5.37e3
82.52
  • 82.52
  • 82.04
AEIR
  • AEIR
  • AEIR
UBERON:0000307blastula
  • ZFS:0000015Blastula:Dome
  • ZFS:0000016Blastula:30%-epiboly
6.30e3
  • 6.30e3
  • 9.99e3
78.92
  • 78.92
  • 66.56
AEIR
  • AEIR
  • AEIR
UBERON:0002100trunk
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000030Pharyngula:Prim-15
7.47e3
  • 7.47e3
  • 1.07e4
  • 1.49e4
75.00
  • 75.00
  • 64.28
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0005519rhombomere 6
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000029Pharyngula:Prim-5
7.47e3
  • 7.47e3
  • 1.28e4
75.00
  • 75.00
  • 57.14
AEIR
  • AEIR
  • AEIR
UBERON:0009620tail bud paraxial mesoderm
  • ZFS:0000027Segmentation:20-25 somites
7.60e3
  • 7.60e3
74.54
  • 74.54
AEIR
  • AEIR
UBERON:0002107liver
  • UBERON:0000066fully formed stage
7.62e3
  • 7.62e3
74.48
  • 74.48
AEIR
  • AEIR
UBERON:0000465material anatomical entity
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000023Segmentation:1-4 somites
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000029Pharyngula:Prim-5
7.97e3
  • 7.97e3
  • 8.71e3
  • 8.79e3
  • 9.96e3
  • 1.08e4
73.32
  • 73.32
  • 70.82
  • 70.57
  • 66.65
  • 63.87
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002082cardiac ventricle
  • UBERON:0000066fully formed stage
8.17e3
  • 8.17e3
72.63
  • 72.63
AEIR
  • AEIR
UBERON:0003059presomitic mesoderm
  • ZFS:0000025Segmentation:10-13 somites
9.01e3
  • 9.01e3
69.85
  • 69.85
AEIR
  • AEIR
UBERON:0000966retina
  • UBERON:0000066fully formed stage
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000031Pharyngula:Prim-25
9.39e3
  • 9.39e3
  • 1.05e4
  • 1.08e4
68.55
  • 68.55
  • 64.71
  • 63.70
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002028hindbrain
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000029Pharyngula:Prim-5
9.71e3
  • 9.71e3
  • 1.17e4
67.48
  • 67.48
  • 60.68
AEIR
  • AEIR
  • AEIR
UBERON:0005511rhombomere 4
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000026Segmentation:14-19 somites
9.96e3
  • 9.96e3
  • 1.12e4
66.66
  • 66.66
  • 62.50
AEIR
  • AEIR
  • AEIR
UBERON:0005515rhombomere 5
  • ZFS:0000026Segmentation:14-19 somites
9.96e3
  • 9.96e3
66.66
  • 66.66
AEIR
  • AEIR
UBERON:0000473testis
  • UBERON:0000066fully formed stage
1.01e4
  • 1.01e4
66.02
  • 66.02
AEIR
  • AEIR
UBERON:2000228lateral line primordium
  • ZFS:0000029Pharyngula:Prim-5
1.12e4
  • 1.12e4
62.50
  • 62.50
AEIR
  • AEIR
CL:0000670primordial germ cell
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000025Segmentation:10-13 somites
1.16e4
  • 1.16e4
  • 1.24e4
61.10
  • 61.10
  • 58.33
AEIR
  • AEIR
  • AEIR
UBERON:0003098optic stalk
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000034Hatching:Pec-fin
  • ZFS:0000030Pharyngula:Prim-15
1.16e4
  • 1.16e4
  • 1.49e4
  • 1.49e4
61.10
  • 61.10
  • 50.00
  • 49.99
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003081lateral plate mesoderm
  • ZFS:0000024Segmentation:5-9 somites
1.19e4
  • 1.19e4
59.99
  • 59.99
AEIR
  • AEIR
UBERON:0005068neural rod
  • ZFS:0000024Segmentation:5-9 somites
1.24e4
  • 1.24e4
58.33
  • 58.33
AEIR
  • AEIR
UBERON:0001893telencephalon
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000031Pharyngula:Prim-25
1.26e4
  • 1.26e4
  • 1.31e4
  • 1.33e4
  • 1.34e4
  • 1.34e4
  • 1.42e4
57.87
  • 57.87
  • 56.22
  • 55.53
  • 55.24
  • 55.24
  • 52.60
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000926mesoderm
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000030Pharyngula:Prim-15
1.28e4
  • 1.28e4
  • 1.38e4
  • 1.38e4
  • 1.39e4
  • 1.49e4
57.13
  • 57.13
  • 53.83
  • 53.83
  • 53.31
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0003060pronephric duct
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
1.31e4
  • 1.31e4
  • 1.32e4
56.23
  • 56.23
  • 55.86
AEIR
  • AEIR
  • AEIR
UBERON:0004879marginal zone of embryo
  • ZFS:0000019Gastrula:Shield
1.34e4
  • 1.34e4
55.24
  • 55.24
AEIR
  • AEIR
CL:0000740retinal ganglion cell
  • ZFS:0000034Hatching:Pec-fin
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0005499rhombomere 1
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000026Segmentation:14-19 somites
1.49e4
  • 1.49e4
  • 1.49e4
50.00
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0007289presumptive rhombomere 1
  • ZFS:0000023Segmentation:1-4 somites
  • ZFS:0000024Segmentation:5-9 somites
1.49e4
  • 1.49e4
  • 1.49e4
50.00
  • 50.00
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0000089hypoblast (generic)
  • ZFS:0000020Gastrula:75%-epiboly
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0008896post-hyoid pharyngeal arch
  • ZFS:0000035Larval:Protruding-mouth
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:2007031anterior neural rod
  • ZFS:0000024Segmentation:5-9 somites
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
ZFA:0001065lateral mesoderm (Danio)
  • ZFS:0000024Segmentation:5-9 somites
1.49e4
  • 1.49e4
49.99
  • 49.99
AEIR
  • AEIR
UBERON:0019248early embryo
  • UBERON:0000107cleavage stage
1.55e4
  • 1.55e4
48.18
  • 48.18
AEIR
  • AEIR
UBERON:0000992female gonad
  • UBERON:0000066fully formed stage
1.58e4
  • 1.58e4
46.97
  • 46.97
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
  • In situ hybridization data: ZFIN
  • RNA-Seq data: Bgee
Sources of raw data:

Orthologs

Paralogs (same species)

Taxon nameGene(s)Expression comparisonSee details
Otophysi1 geneCompare expression

Paralogy information comes from OMA : ENSDARG00000037116.

Cross-references

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