XLOC_028790 (gata3)


Basic Information

Item Value
gene id XLOC_028790
gene name gata3
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 25054510 ~ 25064510 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00055791
AACGGACGGACTTTGTAaaaacaaattgtcttgtttAATTTCAGGTGAtcggaagtaaaaaaaaatcgaaCCAGTGGATTAAACAAAGAAGGAGTTTGGACTTTTTTGAACTTTCGTGTTGTGTGTATCGGTGAGTGTATGAacgtttgttaaaaaaataaacgatGGAAGTAAGTCCGGAGCAGCACCGTTGGGTGACCCATCACACGGTCGGCCAGCATCCTGAGACACATCACCCAGGACTGGGACACTCCTACATGGACCCGTCGCAGTATCAACTTGCGGAAGATGTGGATGTATTGTTTAATATCGACGGACAGAGCAACCATCCGTACTACGGGAACCCGGTTCGGGCCGTGCAGAGATACCCACCGCCACCTCACAGTAGTCAGATGTGTCGCCCATCGTTGCTGCACGGCTCTCTTCCTTGGCTCGATGGAGGCAAATCTATCGGCCCTCACCACAGTACCTCCCCCTGGAACCTTGGGCCTTTCCCCAAGACTTCCCTCCATCACAGTTCCCCTGGGCCTCTGTCCGTCTATCCTCCAGCTTCTTCCTCCTCGCTGTCCGCTGGCCACTCCAGCCCACATCTCTTCACCTTCCCCCCAACTCCACCCAAAGATGTGTCCCCTGACCCTGCAATTTCTACGTCAGGTTCGGGCTCATCTGTTCGACAGGAAGACAAAGAGTGCATTAAGTACCAGGTGTCTCTGGCAGAAAGCATGAAGCTGGATTCGGCTCATAGTCGGAGCATGGCCTCAATCGGAGCGGGCGCGTCCTCCGCGCACCACCCCATCGCCACTTACCCTTCCTATGTACCCGATTATGGGCCGGGGCTCTTCCCACCAAGTAGCCTGATAGGTGGGTCCTCTTCTAGTTATGGTTCCAAAACGAGACCAAAAACAAGGTCCTCTTCAGAGGGTAGAGAATGTGTAAACTGCGGGGCCACCTCGACTCCTCTGTGGCGGAGGGATGGCACCGGTCACTATTTGTGTAACGCCTGCGGACTTTACCACAAGATGAACGGACAGAACCGACCCCTCATCAAGCCCAAACGGAGGCTGTCTGCTGCCAGACGAGCTGGGACCTCATGCGCAAACTGTCAAACGACCACGACGACACTGTGGCGGAGAAATGCCAACGGCGACCCTGTCTGCAATGCCTGCGGCCTGTATTACAAATTACACAATATCAACCGACCGCTCACCATGAAGAAGGAGGGCATCCAGACCCGGAACAGGAAAATGTCCAGCAAGTCCAAGAAGAGCAAAAAGTCCCATGACAGCATGGAGGATTTCTCCAAAAGCTTGATGGAAAAGAACAGTTCCTTCAGCCCGGCCGCCCTGTCGCGTCACATGACCTCGTTCCCTCCCTTTTCGCACTCGGGCCACATGCTCACCACACCCACCCCAATGCACCCCTCCTCTAGCCTGCCCTTCGCCTCACACCACCCATCTAGTATGGTGACGGCGATGGGCTAAAGTGACGGCCCTGCTACCTCCAATCTCCCACCGGTGGACATCTCAAAGCACCGTTAACCTTGAAGCCTGTCACCCGCCGCAACCCTCCAGCTCCCTCACGCGCTACATGGCCCCCCCTTTGATACGTGTCCCGCTTAAAACCCTTATTTCCCCCGTATTACAAGGAAAGAGAACAGACAATGACTTTCTTCATTGCCCCTTCAACCTTGAAGCCTCGCACTGATGTCAACCTTCATTTGTGTACAAATGCCATCTTTCCTGTGGGCATCGAGGCACAAACATTTACCATACTTTAAAGTAACCTTCTCTAACTCCAAAACCCCTTCTTCCTCTTGATCGCATCTCCTCTACTTCATCCCCCAACCTGTGAGACACGAGGAATCGAGCTGTGAATGATAACAGGAGATGAACTCtgcatatatttgtaaaaaaaaatgtctgaaatacATTTAATGAAGACTTTTTAAAAGAGCGAAAAGGCGAGGACGGGAAATGCCCGCGGGCAGCTATTGATAAGAAGGGTACGACTTAAACCTGCAAGGTGGAATGACTCTGTCACGATTTCTATCCGAAAAGTAGGAGGTGAGATGTAGGGAGAGGAAACCTAGAATGGAAATGGTGTGTAATGCATTAAAACTCGTAGTCAGGTCTGTCTTGCAGACTTCCAGCTACTCTTCTGGATGTGTTATAGGTCTTGGGCAATTGGTTTGTGTTCACGTACACATACACatacgcacatgcacacacacacacacatacatgcacacacacacacacacgcacacacacacacgcacacacactctctcacatatACACCAGAAAGACTTCTTTGGGCCCAGGTTATATGCATTGTGAAAAAAAGTTcctgtatttgttatttgtatgtATAATTCAGAGTACCAAAAATACGAAAGAAACAAAGATGTAGAATTATTTCTTTATGTAATGCAGACTGAATGGTTGTACAAATTTAATAATCACTAGTGTAAAAAGAAGACTTGCTTTTTTGTTGcgtaatttttttttccctctttgaaaataataaactagTTTAATCTCTGTTGACATCATACAAGAATGCCACGCCAAGAA
>TCONS_00055792
CTTAGGACCGCTAAGTTATTTGTTGATCTTATCAGGTGATGTCACATTTGACGATTGAGGAGTTAAGCTTAGTGATGTCATGCTAGATAATGTTTTTCATTTGGTAATGCATTAATAATagtcctaataataataataataataataataataatgttattaatgcatttcCAAATTCATACTTTTTTTATTAGTGCGACTCTTCAGCCTGTTTGTATTTTTGATATTGCATTTTCTTCACATTCCtatgaataattcattattattcttAATCTGTGTATTATTTGTGTATATTATTTGCATCATATTTAATCTGCAATAATTCTGTTCAATATAGCAAACGAGCGAATGGCCACTATGTTTATGCGCACCAGTGGCATGGGTTGTGTAGTTGTGCTTGCGTGTGCATGTAAGTTGTGTTTTAGTGGCTCTAAAAATGAGATGTGcatgcgtgtgtatctgtgttcgCAGAGGGTAGAGAATGTGTAAACTGCGGGGCCACCTCGACTCCTCTGTGGCGGAGGGATGGCACCGGTCACTATTTGTGTAACGCCTGCGGACTTTACCACAAGATGAACGGACAGAACCGACCCCTCATCAAGCCCAAACGGAGGCTGTCTGCTGCCAGACGAGCTGGGACCTCATGCGCAAACTGTCAAACGACCACGACGACACTGTGGCGGAG

Function

symbol description
gata3 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including fibroblast growth factor receptor signaling pathway; positive regulation of neurogenesis; and positive regulation of neuron migration. Acts upstream of or within several processes, including cardiac muscle tissue regeneration; embryonic organ morphogenesis; and fin regeneration. Predicted to be located in nucleus. Is expressed in several structures, including digestive system; ectoderm; nervous system; neural tube; and pleuroperitoneal region. Used to study hypoparathyroidism-retardation-dysmorphism syndrome. Human ortholog(s) of this gene implicated in hypoparathyroidism; hypoparathyroidism-deafness-renal disease syndrome; nephrosis; and sensorineural hearing loss. Orthologous to human GATA3 (GATA binding protein 3).

GO:

id name namespace
GO:0002520 immune system development biological_process
GO:2001224 positive regulation of neuron migration biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0043049 otic placode formation biological_process
GO:0045165 cell fate commitment biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0048568 embryonic organ development biological_process
GO:0045582 positive regulation of T cell differentiation biological_process
GO:0008543 fibroblast growth factor receptor signaling pathway biological_process
GO:0042246 tissue regeneration biological_process
GO:0031101 fin regeneration biological_process
GO:0008284 positive regulation of cell population proliferation biological_process
GO:0071696 ectodermal placode development biological_process
GO:0061026 cardiac muscle tissue regeneration biological_process
GO:0050769 positive regulation of neurogenesis biological_process
GO:0030856 regulation of epithelial cell differentiation biological_process
GO:0060788 ectodermal placode formation biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0048702 embryonic neurocranium morphogenesis biological_process
GO:0021514 ventral spinal cord interneuron differentiation biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000976 transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
ko04658 Th1 and Th2 cell differentiation
ko04659 Th17 cell differentiation
ko04928 Parathyroid hormone synthesis, secretion and action
ko05321 Inflammatory bowel disease
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-990415-82 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including fibroblast growth factor receptor signaling pathway; positive regulation of neurogenesis; and positive regulation of neuron migration. Acts upstream of or within several processes, including cardiac muscle tissue regeneration; embryonic organ morphogenesis; and fin regeneration. Predicted to be located in nucleus. Is expressed in several structures, including digestive system; ectoderm; nervous system; neural tube; and pleuroperitoneal region. Used to study hypoparathyroidism-retardation-dysmorphism syndrome. Human ortholog(s) of this gene implicated in hypoparathyroidism; hypoparathyroidism-deafness-renal disease syndrome; nephrosis; and sensorineural hearing loss. Orthologous to human GATA3 (GATA binding protein 3).

Ensembl:

ensembl_id ENSDARG00000016526

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00055791 False 2576 mRNA 0.49 5 25054510 25064510
TCONS_00055792 True 685 lncRNA 0.40 2 25058475 25060736

Neighbor

gene id symbol gene type direction distance location
XLOC_028789 NA coding downstream 5503 24833526 ~ 25049007 (-)
XLOC_028788 NA coding downstream 263769 24726095 ~ 24790741 (-)
XLOC_028787 NA coding downstream 411001 24501129 ~ 24643509 (-)
XLOC_028786 NA coding downstream 678485 24253766 ~ 24376025 (-)
XLOC_028785 celf2 coding downstream 1022586 23886726 ~ 24031924 (-)
XLOC_028791 taf3 coding upstream 19718 25084228 ~ 25168458 (-)
XLOC_028792 atp5f1c coding upstream 108789 25173299 ~ 25181552 (-)
XLOC_028793 itih2 coding upstream 123402 25187912 ~ 25215968 (-)
XLOC_028794 NA coding upstream 180521 25245031 ~ 25247848 (-)
XLOC_028795 tmem110l coding upstream 187345 25251855 ~ 25271455 (-)
XLOC_028784 NA non-coding downstream 1180586 23768478 ~ 23873924 (-)
XLOC_028797 NA non-coding upstream 429946 25494456 ~ 25497067 (-)
XLOC_028802 BX640593.1 non-coding upstream 776276 25840786 ~ 25840902 (-)
XLOC_028804 CT573048.1 non-coding upstream 941932 26006442 ~ 26007456 (-)
XLOC_028807 BX957270.1 non-coding upstream 1062667 26127177 ~ 26147550 (-)

Expression

Expression of XLOC_028790(gata3) in the Zebrafish Sample from each Developmental Stage of PRJEB12982

Boxplot with 18 boxes. Box plot charts are typically used to display groups of statistical data. Each data point in the chart can have up to 5 values: minimum, lower quartile, median, upper quartile, and maximum.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 150.
End of interactive chart.

Expression of XLOC_028790(gata3) in the Zebrafish Sample of PRJEB12982

Bar chart with 360 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 150.
End of interactive chart.

Co-expression Network