XLOC_026809 (dnmt1)


Basic Information

Item Value
gene id XLOC_026809
gene name dnmt1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 54591218 ~ 54607166 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00052142
GCGCGCGCTGCAGTTGGCACTGTCACATATTAATACCCGCTTTtatctgttgttgttttaaatcgTGTTTTTAAGTAGTCAATTCCTTTGATCAAAATCGAACTTGAAATGCCTACCAAGACCTCATTGTCTCTGCCAGAGGATGTCAAAGAACGgCTTCAGGTGTTGGATGAAGGTGGAGACAGTTTGTCAGATGAGgagtgtGTAAAAGAAAAGCTCAGGTTACTACAGGAGTTCCTGCTCGCTGATACTCAGGACCAGCTCAAAAACCTTGAGGACAAGTTAAAGAGCTCTGAGCTCTCCACAGAGGTTTACATGTCAGAGGTGAAGGCTGTACTGAAGAAAGCTCTGGGAGTTGTCAAGGAGGGTGATGGAGTGGAGCAGAATGGACATTCAAATGGCTTCTCTGAAAATGGATCTCACAAAGACAATGGCGAACAGGAGGGAGCCATGGACACTCAGGAGGAAGGAGACGCTATAAAGTCTCCCAGTGCCCCAAAGGGAAGGGGCGGACGTCGCAGTAAAGCAGACTCTGAGCCCAAGAAATCTCCAGCCAGTTCCAGGGTTACACGCAACACTGGGAAGCAACAAACTATCGTGTCAATGTTTTCTAGAGTCCCAAAACGAAAGTCTGATGAGCTGAATGGAGAACCAGCAAATGGTGACACAGAAATTAAGACTGAGGAAACTATCACTGAGGAGGTCCGTGAAGAGAAACGCCTTAAAACAGAAGATGAGAAGCCTGAAGCTGAGAATGCTGCTAACCTCAAACCTGTGTCTACAGCAAAGACTCCTCCGCCGAAATGTCCTGACTGCAGGCAGTATCTGGATGATTCAGACCTAAAGTTCTTTCAAGGGGATCCTGATGATGCTTTGGATGAACCAGAGATGTTAACCGATGAGCGTCTCTCCCTCTTTGATTCAAATGAGGATGGTTTTGAAAGCTATGAAGATCTTCCTCAGCACAAGATCACGAACTTCAGTGTGTATGACAAGCGTGGTCATCTGTGTCCGTTTGATTCTGGCCTCATTGAGAAAAATGTGGAACTGTACTTTAGTTGTGCTGTAAAGCCCATCTATGATGACAACCCATGCATGGATGGTGGGGTTCCTGCCAAAAAGCTTGGTCCCATCAATGCTTGGTGGATCACTGGTTTTGATGGTGGGGAGAAGGCTTTGATTGGCTTCACTACAGCGTTTGCTGACTATATCCTAATGGACCCCAGTGAGGAGTACTCTGCTATTTTTGCTCTGATGCAGGAGAAGATCTACATGAGCAAAATTGTGGTTGAATTTCTTCAGAAAAACCAGGATGCCACATATGAGGACCTGCTGAACAAAATAGAGACTACTGTCCCGCCCGCGGGGCTCAACTTCAACCGTTTCACAGAAGACACACTCTTGCGCCATGCCCAGTTTGTGGTAGAGCAGGTCGAGAGCTACGATGAGGCTGGAGACTCTGATGAACAACCCATTATAATCACTCCATGTATGCGTGACTTGATCAAGCTGGCTGGTGTTACTTTGGGCAAGAGGAGAGCAGCCAGAAGACAAGCCGTCCGCCATCCCACTAAGATTGAAAAGGACAACAAGGGCCCGACTAAAGCCACCACCACTAAACTGGTCTACCTGATCTTTGACACATTCTTCTCTGATCAGATTGACCAGAACAATAAGGATGGAGGTGTGAAGAGACAACGGTGTGGTGTCTGTGAGGTGTGTCAAGCTCCAGACTGCGGCAAGTGTTCAGCTTGTAAGGATATGATCAAGTTTGGAGGCAGTGGCAGAAGTAAACAAGCCTGTCAGAAGAGGAGGTGTCCCAACCTGGCAGTGAAAGAAGCTGAGGATGATGAGAACATGGATGAGGAGGATGTGTTGCCAGTTAAGGATACAAAGAAAATGTCTCAGACCAAGAAGAAGAAACAAACCAAGAACAAAATCAGCTGGGTTGGTGAGCCATTAAAGACTGAGGGAAAGAAGGAATATTACATGAAAGTGCGTGTGGAAAATGAGGTGTTGGAGGTGGGAGATTGTGTATCTGTAAGCCCTGATGACCCATCACATCCTCTCTACCTGGCCAGGATTACAGCTTTGTGGGATGATGGTGAGAAGATGTTTCATGCCCATTGGTTCTGCCGTGGCACTGATACGGTCCTTGGAGAGTCATCAGACCCTCTTGAGCTCTTCCTAGTGGATGAGTGTGAAGACATGCAGCTAAGTTTTATCCATGGCAAGGTCAACGTCTTCTACAAGGCACCATCTGAAAACTGGTATATGGAGGGTGGAATGGATGAAGACATCAAAGTGATTGACGATGATGGTGAAAGCTTCTTTTATCAGCTCCATTATGAAGGTGAATGTGCTCGCTTTGAGACTCCTCCCAAGGTCACACCCTCTGAGGACTGCAAGTATAAGTTTTGTGCCAGCTGCACCAGAAACAAAGAACGAGAGGCTGAGTCTGTTCCCCATGCCTATGAGCCCTTAGAGGATGAGGAGAGTGACTCTAAAGTCTTCTATGGGTTGGTGAACTATAAGGGAGAGCAGTACAAAGTAGGGGACAGTGTCTACCTACCACCTGAGGCCTTTAACTTTGTAGTAAAGGCTGCAAGCCCGGTGAAGCGTTCCCACAGAAAAGATGACGTTGATGAAGATCTTTACCCTGAATACTACAGGAAGTCCTCTGATTACATTAAAGGCTCAAATCTGGATGCTCCTCAGCCTTTCCGCATTGGGCGCATCAAAGAAATCTTCTGCAACAAGCGCAGCAATGGAAAGCCAGACACCTCAGAGATCAAACTGCGCCTCTATAAATTCTACAGACCTGAAAACACTCACAAGGGACCAAAGGGAGCATATCATTCTGATATAAACCAACTCTACTGGAGTGACGAAGAGGCGACCGTCAGCATGACTGAGGTGCTGACACGCTGTCGTGTTGAGTATGCAGAGGATCTGGTTGAAAGTGTGCAGGACTATTCAAACAAAGGACCCGATCGCTTCTATTTCCTTGAGGCATACAATGCCAAAACCAAGAGCTTTGAGGATCCTCCCAATCATGCTAGATCTGCTGTGAATAAGGGCAAAGGGAAAGGAAAGGGCAAAGGAAAAGGGAAAGGGAAAGCAGCGCCTCAAGAACCACAGGATCAGGAGCCACAAGagccagtggttcccaaactgcGCACTCTGGATGTATTCTCTGGCTGTGGTGGTCTGTCTGAGGGCTTCCATCAAGCAGGCATCTCAGAGACTCACTGGGCAATAGAGATGTGGGACCCTGCCGCTCAGGCATTCAGGTTGAACAATCCAGGCACGACCGTTTTCACAGAGGACTGTAACGTCCTGCTGAAGCTGGTAATGTCTGGAGAGAAGACTAACTCTCTTGGACAGAAGCTGCCACAGAAGGGTGACGTGGAGATGCTCTGCGGTGGGCCGCCTTGCCAAGGcttcagtggaatgaaccgcttcAACTCTCGCACATACTCAAAGTTCAAGAACTCTCTGGTTGTTTCTTATCTGAGTTATTGTGACTACTACAGACCCAAGTTCTTCCTGCTGGAGAACGTAAGGAACTTTGTGTCATTTAAGCGCTCCATGGTCCTGAAGCTCACACTGCGCTGTCTGGTGCGCATGGGCTACCAGTGCACCTTTGGTGTGCTGCAGGCTGGACAGTATGGGGTGGCCCAGACTCGACGCAGAGCTATCATCCTGGCTGCAGCCCCTGGTGAAAAGCTGCCCCGCTACCCTGAACCCTTGCATGTGTTTGCCCCTCGAGCATGTTCTCTTAGTGTGGCAGTTGATGAGAAGAAATATGTCAGCAATGTTACTCGTGGAAATGGGGGCATTTATCGCACCATCACAGTACGGGACACCATGTCTGACCTCCCAGAAATCCGCAATGGAGCTGCTGCACTAGAGATTTCCTACAATGGCGAGCCACAGTCCTGGTTCCAGAGGCAAATTCGGGGCTCTCAGTATCAGCCCATCCTCAGGGACCACATCTGCAAGGACATGAGTGCCCTGGTTGCTGCCCGCATGCGTAACATTCCTCTGGCTCCTGGTTCAGACTGGAGGGATCTACCTAATTTTGAGGTGCGGTTGCGGGATGGCACCACCACAAAAAAGCTTCGCTACACACACCCTGACAAAAAGAATGGCCGCAGTGGCACCGGTGCCCTGAGAGGAGTGTGTTCATGTTCTGAAGGAAAACCGTGTGATCCTGCAGACAGGCAGTTCAACACCCTGATTCCCTGGTGTCTGCCTCATACGGGTAACCGCCATAATCACTGGGCTGGTCTGTATGGCCGCCTGGAATGGGACGGATTCTTCAGCACTACAGTTACCAATCCTGAGCCAATGGGAAAGCAGGGACGTGTCCTTCACCCTGAGCAGCACCGTGTGGTGAGTGTCAGGGAATGTGCACGCTCTCAGGGCTTCCCAGACACCTACCGCTTCTTTGGCAATGTGCTAGACAAACACAGACAAGTTGGTAATGCTGTTCCTCCACCCCTCTCCAAAGCCATTGGCCTGGAGGTCAAGAAGTGTGTGCTGGAGAAAATGAGGGAGAATGCTACAgAGCCTGTGAAGCAGGAGAAAATGGAGCTCTCTGACTAAAGCCATCATTCTGTAAAATTGAAGCACATTTTTCATTGTGTTTGGATCCGTCTGAAGCATCACtccattttaaacattttgttattCATAAGCTGGTGTAGAGCTTGGCCACTTCTGCGGCCTTTCTATGGACAGTCTGTGCAGTGCCATTCATGTGATGTTTTATCAATTTCTAAATGTGATTTTAACCATGTATTTGCAATTGTCCACTCTAAGACAGTGGTATAAATTCTATATAGGTTTTTATATGttgtaatatttcaaataaagctcttattaaatgtt

Function

symbol description
dnmt1 Enables DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates. Involved in negative regulation of gene expression. Acts upstream of or within several processes, including Kupffer's vesicle development; animal organ development; and macromolecule methylation. Predicted to be active in nucleus. Is expressed in several structures, including digestive system; immature eye; nervous system; neural tube; and tail bud. Human ortholog(s) of this gene implicated in Graves' disease; autosomal dominant cerebellar ataxia, deafness and narcolepsy; hereditary sensory neuropathy; hereditary sensory neuropathy type 1E; and lung non-small cell carcinoma. Orthologous to human DNMT1 (DNA methyltransferase 1).

GO:

id name namespace
GO:0006306 DNA methylation biological_process
GO:0031016 pancreas development biological_process
GO:0031017 exocrine pancreas development biological_process
GO:0051216 cartilage development biological_process
GO:0048565 digestive tract development biological_process
GO:0002088 lens development in camera-type eye biological_process
GO:0035622 intrahepatic bile duct development biological_process
GO:0090116 C-5 methylation of cytosine biological_process
GO:0060216 definitive hemopoiesis biological_process
GO:0051567 histone H3-K9 methylation biological_process
GO:0070121 Kupffer's vesicle development biological_process
GO:0007368 determination of left/right symmetry biological_process
GO:0001889 liver development biological_process
GO:0044030 regulation of DNA methylation biological_process
GO:0032776 DNA methylation on cytosine biological_process
GO:0010842 retina layer formation biological_process
GO:0032259 methylation biological_process
GO:0060042 retina morphogenesis in camera-type eye biological_process
GO:0005634 nucleus cellular_component
GO:0003886 DNA (cytosine-5-)-methyltransferase activity molecular_function
GO:0016740 transferase activity molecular_function
GO:0008168 methyltransferase activity molecular_function
GO:0003677 DNA binding molecular_function
GO:0003682 chromatin binding molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
ko00270 Cysteine and methionine metabolism
ko05206 MicroRNAs in cancer
ko03000 Transcription factors
ko03032 DNA replication proteins
ko03036 Chromosome and associated proteins
ko02048 Prokaryotic defense system

ZFIN:

id description
ZDB-GENE-990714-15 Enables DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates. Involved in negative regulation of gene expression. Acts upstream of or within several processes, including Kupffer's vesicle development; animal organ development; and macromolecule methylation. Predicted to be active in nucleus. Is expressed in several structures, including digestive system; immature eye; nervous system; neural tube; and tail bud. Human ortholog(s) of this gene implicated in Graves' disease; autosomal dominant cerebellar ataxia, deafness and narcolepsy; hereditary sensory neuropathy; hereditary sensory neuropathy type 1E; and lung non-small cell carcinoma. Orthologous to human DNMT1 (DNA methyltransferase 1).

Ensembl:

ensembl_id ENSDARG00000030756

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00052142 True 4896 mRNA 0.48 34 54591218 54607166

Neighbor

gene id symbol gene type direction distance location
XLOC_026808 angptl6 coding downstream 46606 54524227 ~ 54544612 (-)
XLOC_026807 si:ch73-208g10.1 coding downstream 67024 54502350 ~ 54524194 (-)
XLOC_026806 trip10a coding downstream 90864 54431093 ~ 54500354 (-)
XLOC_026805 NA coding downstream 748434 53842532 ~ 53842784 (-)
XLOC_026803 rdh8a coding downstream 869036 53687645 ~ 53722182 (-)
XLOC_026810 s1pr2 coding upstream 8849 54616015 ~ 54669185 (-)
XLOC_026811 NA coding upstream 141230 54748396 ~ 54784321 (-)
XLOC_026812 NA coding upstream 184387 54791553 ~ 54820900 (-)
XLOC_026813 ubald1b coding upstream 226492 54833658 ~ 54846444 (-)
XLOC_026814 NA coding upstream 266235 54873401 ~ 54884180 (-)
XLOC_026804 BX004869.1 non-coding downstream 901790 53689310 ~ 53689428 (-)
XLOC_026802 NA non-coding downstream 1002041 53573131 ~ 53589177 (-)
XLOC_026797 NA non-coding downstream 1138436 53449116 ~ 53452782 (-)
XLOC_026796 NA non-coding downstream 1358723 53230710 ~ 53232495 (-)
XLOC_026831 NA non-coding upstream 1231288 55838454 ~ 55839514 (-)
XLOC_026834 CU855917.1 non-coding upstream 1803975 56411141 ~ 56413023 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000113_00574016_00587822 DNMT1 coding CI01000113 null 573455 ~ 588082 (+)
bowfin (Amia calva) AMCG00008470 dnmt1 coding CM030126.1 CM030126.1 1896162 ~ 1913755 (-)