D. rerio Gene: pdlim1 - ENSDARG00000019845 - Danio rerio (zebrafish)

General information

Ensembl IDENSDARG00000019845
Namepdlim1
DescriptionPDZ and LIM domain 1 (elfin) [Source:ZFIN;Acc:ZDB-GENE-030131-5227]
OrganismDanio rerio (zebrafish)
Synonym(s)clim1, elfin, wu:fa19a03, wu:fy34f10, zgc:110681
Orthologs(s)20 orthologs
Paralog(s)3 paralogs

Expression

Anat. entity IDAnatomical entityDevelopmental stage(s)Rank scoreExpression scoreSources
UBERON:0002106spleen
  • UBERON:0000066fully formed stage
683
  • 683
97.72
  • 97.72
AEIR
  • AEIR
UBERON:0000014zone of skin
  • UBERON:0000066fully formed stage
774
  • 774
97.41
  • 97.41
AEIR
  • AEIR
UBERON:4000164caudal fin
  • UBERON:0000066fully formed stage
  • ZFS:0000033Hatching:Long-pec
836
  • 836
  • 894
97.20
  • 97.20
  • 97.01
AEIR
  • AEIR
  • AEIR
UBERON:0000206pharyngeal gill
  • UBERON:0000066fully formed stage
1.30e3
  • 1.30e3
95.65
  • 95.65
AEIR
  • AEIR
UBERON:0000033head
  • UBERON:0000066fully formed stage
  • ZFS:0000037Larval:Day 5
1.66e3
  • 1.66e3
  • 1.00e4
94.44
  • 94.44
  • 66.45
AEIR
  • AEIR
  • AEIR
UBERON:0000922embryo
  • ZFS:0000026Segmentation:14-19 somites
  • UBERON:0000068embryo stage
  • ZFS:0000025Segmentation:10-13 somites
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000029Pharyngula:Prim-5
  • UBERON:0004707pharyngula stage
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000037Larval:Day 5
1.75e3
  • 1.75e3
  • 1.93e3
  • 2.26e3
  • 2.42e3
  • 2.57e3
  • 2.74e3
  • 3.45e3
  • 3.67e3
  • 3.68e3
  • 4.17e3
94.13
  • 94.13
  • 93.55
  • 92.44
  • 91.91
  • 91.41
  • 90.83
  • 88.45
  • 87.71
  • 87.67
  • 86.03
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0006860swim bladder
  • UBERON:0000066fully formed stage
1.98e3
  • 1.98e3
93.37
  • 93.37
AEIR
  • AEIR
UBERON:0000948heart
  • ZFS:0000036Larval:Day 4
  • UBERON:0000066fully formed stage
2.17e3
  • 2.17e3
  • 2.65e3
92.74
  • 92.74
  • 91.12
AEIR
  • AEIR
  • AEIR
UBERON:0000955brain
  • ZFS:0000031Pharyngula:Prim-25
  • UBERON:0000066fully formed stage
2.49e3
  • 2.49e3
  • 1.10e4
91.66
  • 91.66
  • 63.11
AEIR
  • AEIR
  • AEIR
CL:0000094granulocyte
  • UBERON:0000066fully formed stage
2.92e3
  • 2.92e3
90.24
  • 90.24
AEIR
  • AEIR
UBERON:0007010cleaving embryo
  • ZFS:0000005Cleavage:16-cell
3.05e3
  • 3.05e3
89.80
  • 89.80
AEIR
  • AEIR
UBERON:0000160intestine
  • UBERON:0000066fully formed stage
3.22e3
  • 3.22e3
89.23
  • 89.23
AEIR
  • AEIR
UBERON:0002082cardiac ventricle
  • UBERON:0000066fully formed stage
3.27e3
  • 3.27e3
89.05
  • 89.05
AEIR
  • AEIR
UBERON:0000307blastula
  • ZFS:0000015Blastula:Dome
  • ZFS:0000016Blastula:30%-epiboly
  • ZFS:0000009Blastula:256-cell
  • ZFS:0000011Blastula:1k-cell
  • ZFS:0000014Blastula:Sphere
3.31e3
  • 3.31e3
  • 3.32e3
  • 3.73e3
  • 4.73e3
  • 4.83e3
88.92
  • 88.92
  • 88.87
  • 87.51
  • 84.16
  • 83.82
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0007132head kidney
  • UBERON:0000066fully formed stage
3.49e3
  • 3.49e3
88.32
  • 88.32
AEIR
  • AEIR
UBERON:0009620tail bud paraxial mesoderm
  • ZFS:0000027Segmentation:20-25 somites
3.62e3
  • 3.62e3
87.89
  • 87.89
AEIR
  • AEIR
UBERON:0000468multi-cellular organism
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000042Juvenile:Days 30-44
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000026Segmentation:14-19 somites
  • ZFS:0000036Larval:Day 4
  • ZFS:0000040Larval:Days 14-20
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000019Gastrula:Shield
  • ZFS:0000022Gastrula:Bud
  • UBERON:0000106zygote stage
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000037Larval:Day 5
  • ZFS:0000011Blastula:1k-cell
3.67e3
  • 3.67e3
  • 3.81e3
  • 4.46e3
  • 4.54e3
  • 4.63e3
  • 4.65e3
  • 4.66e3
  • 5.10e3
  • 5.95e3
  • 7.05e3
  • 7.19e3
  • 7.26e3
  • 7.47e3
  • 7.78e3
  • 1.22e4
87.70
  • 87.70
  • 87.24
  • 85.08
  • 84.81
  • 84.52
  • 84.43
  • 84.41
  • 82.91
  • 80.07
  • 76.38
  • 75.93
  • 75.68
  • 74.98
  • 73.97
  • 59.08
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0004734gastrula
  • ZFS:0000019Gastrula:Shield
  • UBERON:0000109gastrula stage
  • ZFS:0000017Gastrula:50%-epiboly
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000020Gastrula:75%-epiboly
  • ZFS:0000021Gastrula:90%-epiboly
3.85e3
  • 3.85e3
  • 4.78e3
  • 5.48e3
  • 5.64e3
  • 6.27e3
  • 6.70e3
87.10
  • 87.10
  • 84.00
  • 81.65
  • 81.11
  • 79.02
  • 77.57
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002548larva
  • UBERON:0000069larval stage
  • ZFS:0000037Larval:Day 5
  • ZFS:0000035Larval:Protruding-mouth
4.20e3
  • 4.20e3
  • 4.22e3
  • 4.64e3
85.95
  • 85.95
  • 85.88
  • 84.48
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002107liver
  • UBERON:0000066fully formed stage
4.29e3
  • 4.29e3
85.65
  • 85.65
AEIR
  • AEIR
UBERON:0003059presomitic mesoderm
  • ZFS:0000025Segmentation:10-13 somites
4.38e3
  • 4.38e3
85.33
  • 85.33
AEIR
  • AEIR
UBERON:0002481bone tissue
  • UBERON:0000066fully formed stage
4.59e3
  • 4.59e3
84.63
  • 84.63
AEIR
  • AEIR
UBERON:0001630muscle organ
  • UBERON:0000066fully formed stage
4.76e3
  • 4.76e3
84.06
  • 84.06
AEIR
  • AEIR
UBERON:0000992female gonad
  • UBERON:0000066fully formed stage
4.79e3
  • 4.79e3
83.95
  • 83.95
AEIR
  • AEIR
UBERON:2000088YSL
  • ZFS:0000023Segmentation:1-4 somites
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
4.98e3
  • 4.98e3
  • 4.98e3
  • 4.98e3
83.33
  • 83.33
  • 83.33
  • 83.33
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0002329somite
  • ZFS:0000025Segmentation:10-13 somites
5.98e3
  • 5.98e3
79.96
  • 79.96
AEIR
  • AEIR
UBERON:0002385muscle tissue
  • UBERON:0000066fully formed stage
6.23e3
  • 6.23e3
79.13
  • 79.13
AEIR
  • AEIR
UBERON:0000970eye
  • ZFS:0000031Pharyngula:Prim-25
6.50e3
  • 6.50e3
78.24
  • 78.24
AEIR
  • AEIR
UBERON:0003982mature ovarian follicle
  • UBERON:0000066fully formed stage
6.52e3
  • 6.52e3
78.18
  • 78.18
AEIR
  • AEIR
UBERON:0019248early embryo
  • UBERON:0000107cleavage stage
7.34e3
  • 7.34e3
75.43
  • 75.43
AEIR
  • AEIR
UBERON:0002328notochord
  • ZFS:0000023Segmentation:1-4 somites
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
8.96e3
  • 8.96e3
  • 9.51e3
  • 9.51e3
69.98
  • 69.98
  • 68.16
  • 68.16
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000966retina
  • ZFS:0000037Larval:Day 5
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000031Pharyngula:Prim-25
  • UBERON:0000066fully formed stage
9.59e3
  • 9.59e3
  • 9.87e3
  • 1.09e4
  • 1.31e4
67.88
  • 67.88
  • 66.96
  • 63.34
  • 56.15
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000473testis
  • UBERON:0000066fully formed stage
9.62e3
  • 9.62e3
67.78
  • 67.78
AEIR
  • AEIR
UBERON:0001003skin epidermis
  • ZFS:0000027Segmentation:20-25 somites
  • ZFS:0000028Segmentation:26+ somites
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000031Pharyngula:Prim-25
  • ZFS:0000033Hatching:Long-pec
9.71e3
  • 9.71e3
  • 9.71e3
  • 9.96e3
  • 1.14e4
  • 1.21e4
  • 1.32e4
67.48
  • 67.48
  • 67.48
  • 66.65
  • 61.75
  • 59.36
  • 55.86
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0000926mesoderm
  • ZFS:0000023Segmentation:1-4 somites
  • ZFS:0000024Segmentation:5-9 somites
  • ZFS:0000025Segmentation:10-13 somites
9.96e3
  • 9.96e3
  • 9.96e3
  • 9.96e3
66.65
  • 66.65
  • 66.65
  • 66.65
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001792ganglionic layer of retina
  • ZFS:0000033Hatching:Long-pec
1.10e4
  • 1.10e4
63.32
  • 63.32
AEIR
  • AEIR
UBERON:0002037cerebellum
  • ZFS:0000033Hatching:Long-pec
1.17e4
  • 1.17e4
60.70
  • 60.70
AEIR
  • AEIR
UBERON:0001945superior colliculus
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000030Pharyngula:Prim-15
1.18e4
  • 1.18e4
  • 1.41e4
60.50
  • 60.50
  • 52.75
AEIR
  • AEIR
  • AEIR
UBERON:0000941cranial nerve II
  • ZFS:0000033Hatching:Long-pec
1.19e4
  • 1.19e4
60.00
  • 60.00
AEIR
  • AEIR
UBERON:0000151pectoral fin
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000030Pharyngula:Prim-15
1.21e4
  • 1.21e4
  • 1.29e4
59.36
  • 59.36
  • 56.65
AEIR
  • AEIR
  • AEIR
UBERON:0001789outer nuclear layer of retina
  • ZFS:0000033Hatching:Long-pec
1.24e4
  • 1.24e4
58.33
  • 58.33
AEIR
  • AEIR
UBERON:2001073axial vasculature
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000036Larval:Day 4
1.24e4
  • 1.24e4
  • 1.49e4
58.33
  • 58.33
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0001905pineal body
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000030Pharyngula:Prim-15
1.26e4
  • 1.26e4
  • 1.40e4
57.87
  • 57.87
  • 53.10
AEIR
  • AEIR
  • AEIR
UBERON:0003051ear vesicle
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000036Larval:Day 4
1.27e4
  • 1.27e4
  • 1.34e4
  • 1.49e4
57.47
  • 57.47
  • 54.97
  • 50.00
AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0001555digestive tract
  • ZFS:0000033Hatching:Long-pec
1.31e4
  • 1.31e4
56.23
  • 56.23
AEIR
  • AEIR
UBERON:0001893telencephalon
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000030Pharyngula:Prim-15
1.33e4
  • 1.33e4
  • 1.42e4
55.53
  • 55.53
  • 52.60
AEIR
  • AEIR
  • AEIR
UBERON:0001017central nervous system
  • ZFS:0000029Pharyngula:Prim-5
  • ZFS:0000036Larval:Day 4
1.34e4
  • 1.34e4
  • 1.49e4
55.24
  • 55.24
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0002028hindbrain
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000033Hatching:Long-pec
1.34e4
  • 1.34e4
  • 1.34e4
54.97
  • 54.97
  • 54.97
AEIR
  • AEIR
  • AEIR
UBERON:2000004anterior axial hypoblast
  • ZFS:0000017Gastrula:50%-epiboly
  • ZFS:0000018Gastrula:Germ-ring
  • ZFS:0000019Gastrula:Shield
  • ZFS:0000021Gastrula:90%-epiboly
  • ZFS:0000022Gastrula:Bud
  • ZFS:0000020Gastrula:75%-epiboly
1.39e4
  • 1.39e4
  • 1.39e4
  • 1.39e4
  • 1.39e4
  • 1.39e4
  • 1.39e4
53.55
  • 53.55
  • 53.55
  • 53.55
  • 53.55
  • 53.55
  • 53.31
AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
  • AEIR
UBERON:0005886post-hyoid pharyngeal arch skeleton
  • ZFS:0000030Pharyngula:Prim-15
  • ZFS:0000036Larval:Day 4
1.42e4
  • 1.42e4
  • 1.49e4
52.60
  • 52.60
  • 50.00
AEIR
  • AEIR
  • AEIR
UBERON:0000959optic chiasma
  • ZFS:0000033Hatching:Long-pec
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0001943midbrain tegmentum
  • ZFS:0000036Larval:Day 4
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0000017exocrine pancreas
  • ZFS:0000033Hatching:Long-pec
1.49e4
  • 1.49e4
50.00
  • 50.00
AEIR
  • AEIR
UBERON:0000016endocrine pancreas
  • ZFS:0000033Hatching:Long-pec
1.49e4
  • 1.49e4
49.99
  • 49.99
AEIR
  • AEIR
UBERON:0003052midbrain-hindbrain boundary
  • ZFS:0000033Hatching:Long-pec
  • ZFS:0000030Pharyngula:Prim-15
1.49e4
  • 1.49e4
  • 1.49e4
49.98
  • 49.98
  • 49.98
AEIR
  • AEIR
  • AEIR
UBERON:0001791inner nuclear layer of retina
  • ZFS:0000033Hatching:Long-pec
1.49e4
  • 1.49e4
49.98
  • 49.98
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
Chordata3 genesCompare expression

Paralogy information comes from OMA : ENSDARG00000019845.

Cross-references

EnsemblENSDARG00000019845 (pdlim1)
ZFINZDB-GENE-030131-5227 (pdlim1)
EMBLBX663512
Uniprot/SPTREMBLB8A5V5, B8A5V5_DANRE, B8A5V6, B8A5V6_DANRE

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