XLOC_026894 (jmjd6)


Basic Information

Item Value
gene id XLOC_026894
gene name jmjd6
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 60575113 ~ 60589292 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00052256
ATGAACCATAAAAGCAAGAAACGGATCAAAGAAGCGAAACGGAGCGCCCGACCCGAGCTGAAGGACTCAAGCGACTGGACCAAACACGAATACTGCAAGAGCTTCGACCTGTCGCACAGGAGCGTGAAGgaTAATGTGGAGCGAGCGGACGTTCAGCGGCTCAGTCCAGAGGAGTTCATCCAGCGCTTTGAGAAGCCTTATAAACCCGTGGTTTTGCTCAACGTCGAGGACTCGTGGCCCGCTCGTGAAAAGTGGACCCTGGAGAGACTCAAGCGCAAATACCGCAACCAGAAGTTCAAGTGCGGCGAGGACAACGACGGTTACTCGGTCAAGATGAAAATGAAGTATTACGTTGAGTATTTGGAGTCGACTCACGACGACAGTCCGCTCTACATCTTCGACAGCAGTTTCGGGGAGCACGCCAAACGCCGAAAACTACTGGAGGACTATCAGGTGCCGCTTTTCTTCAGAGACGACCTCTTTCAGTTCGCCGGAGAGAAGAGACGCCCGCCGTACAGGTGGTTTGTAATGGGTCCGGCCCGCTCTGGGACAGGCATCCACATCGACCCACTGGGCACGAGTGCATGGAATGCTCTGGTTCAGGGCCACAAGCGCTGGTGTCTCTtccccacacacacaccccgTGAGCTCATCAAGGTGACACGGGACGAGGGAGGAAACCAGCAGGACGAGGCCATCACCTGGTTCAACGTCATCTACCCGCGCACACAGCAGAGCACCTGGCCCGACGAGTTCAGGCCGCTGGAGATCCTGCAGCGCCCTGGAGAGACCGTGTTCGTGCCCGGTGGATGGTGGCATGTCGTCCTCAACTTGGACACAACCATTGCCGTGACCCAGAATTTTGCAAGCACCACCAATTTTCCCATTGTGTGGCATAAGACGGTGCGAGGCCGACCCAAACTCTCCAGAAAGTGGTACCGgATCCTGAAGCAGGAACGGCCTGATATTGCTGCTATAGCGGATAAAGTGGATCTGCAGGAGTCGACAGGCATCGCCTCGGATAGCTCCAGCGACTCgtcctcatcctcctcctccagctcctctgacAGCGACTCCGAGGCTGACTCGGGCTCTGAGGGCGACGCCATGACCCACCGCAGAAAGAAGAGGAGAACAGGAGGCATGATGGGGAACGGTGACATCACAAGCCAGGACGACTGCGCCAGCAAAGAGCGCAGTTCATCCCGGTGACAAAACTGAGGAACCTGAACTAAGTATACCAAGAAGTGTGCTTGCGGGAGGAGCATCGCATGAATGGGAGGATGAGGGGGAAATCGTCTTTTTTGTTGTTGCCTTTGCAGATGTCAGGCTCTGGACGGCGAGTATGGTGTGTCCTCCGGTCCCAGTGCCAAGATCATTGATCAAAACGAGACGCTGTTTGTGGATTTCACAGGGGTTATGTTCAGATTTCTGGTGAAATGTGAGACTATACGGTTGAGCTGTGGCGCAAAGTTGTATAAGAAATTGattctgagattttcaaaatgcatctctGTTCTCTCACAAATTTATTATGAGCTTAGTTTTGTACAATAGATGGCGCTTTAggttagttttgaacagcagatggcgctttaagccagtttttagcagcagactatgctctgggctagttttaacagcaggtggcgctctaggctagtttttaaatcaATAGacaacgctctaggctagttttgaacagcagatggcgctctaggctagtttttatgaACAAATGGCACTAGCTATCTTTTATAACAAGCCCAGAATGTCGTCTGCCAAtttaaaaactaccctagagcatcgtctgctgatttagaaactagcctagagggccatctgctgaTTAAACattgcctagagcgccatttgctgatttaaaaaactagcctagagcgccgtctgctgttgaaaactagcctagagcaccatctgctcttaaaactaccctagagcgccgcctgctgtttcaaaactagcctagagcgcagtctgctggttaaaaactagcctagagcgccgtctgctattAATCACTACCGTAGAGTGCcgtttgctgttaaaaacaaacctAGAGTGGCATCTGCTGTTACAACTAGCAAAACTAACAGccgacagtgctctaggctagttttgaacagcagacggcactctagttATCAAAAAATGCTGCtcaaagctagcctagagcgttGTCAGCTGCtcaaagctagcctagagcaccatctgctgctcaatactagcctagagcaaaactagcctagaatgcaccgtctgctgctaaaaactatcctagagcgtcgtctgcttctcaaaactagcctagagcaaaactagcctagagcccgctgtctgctgctaaaaactagcctagagcgccgtctgctgctcaatactagcctagagcaaaactagcctagagtgcgctgtctgctgctaaaaactagcctagagcgtcgtctgcttCTCAAAACTAGCTAGagcaaaactagcctagagcgtgccatctgctgctaaaaaccaACCTAGAAACTAGGtgctcaaaactagcctagagcaccgttttctgttcaaaactagtctagagcgtcaTTTGCTGcttgaaactagcctagagcgccatctgctgctcAAAGCTAGCCTAGAAGCATTGTCTGCTTTTCAAAACCAgcttagagcgccgtctgctgttctaAACTTAACTCATTCAAGAGAAAATATCGATTTTTCAAAATGCAGACTTCATTTCTTAGACGATTTTTCCCCACAGCTCTGTAATGCGGTTTGGCCTGATGTGTAATGCTGCCTTTAGCTCTATGaacatagatttattttattactgattTCTCTTGAGCTGCACTTAAAACCTGGGTTTCTTGTCTTGCGGTTTGCAGGAAGAACTAGCGCATAACAGTTAAGTTCACCCTAAAGTgaatattgtcatcatttactcaaccttccaCTTcttttctgagtttctttctactgctAAACACAAacagatagtttgaagaaagtcCTATGGTCGCTATTGATTTCTGTATAATTATTTTCCAGCTATGGATATCTCCTACTATggcattttttttccttcaacattcttcaaaatatcttcttttgttttcaacagtgGGGGACAAAACGGGTTTAGATCCGCTTGAGGGAGTAAATAGAgggtaaattaaaaatgtttaggtGAGTTATCCCTTTAAAACtgttaaactgcttttatccctTTTTCAAGTCTAAATGTCTCATTTTTAGAAAAATCATTTAACTATTAAAGCAAAATGGGAATTAATCAGCATGATGTGTCCGCTATTTACTTGAATAAGAGGACAAATTAAACCATGGCTTAATTTAACTAAAATCAGGGCAACAAATGAGTAAAACAACCATTTGATTCTGAAATTCTGCCCATGATGATGTTTTTAACACACTTCTTTAGTTGAAACTGCTGTGAATGCACAAGTGATTGGTCGAGTTTGACCTGTTTGATAATTAGCGCGTTGTTTGTGTTTGATTGaaaaagtgtgtatgttttttttttcttttatatattcttTCTGCGCAAGTCAAACACTAGAGGGCGCTAATGTTTATTGTACATGTACTATGAGCCACACAACAGCAGAAAAGCTTCCAATTAGTGCTGTTAAACAGTTAATCGTGACTAATTGCATTCAAAATGAGTTTGCAATtacattattgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgcgcgcatttacatatgtgtgtatatatatatatatatatatatatatatatatatatgtgtatgtgtgtgtgtgcgtgtgtatgtgtatatatatatatatatatatgtttatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatatgtatgcatgtatgtgtgtgtattatatatatatatgtatatatatatatatgtgtgtgtgtgtgtgtgtgtgtgtatatatatatatattatctatatataatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatacacacacacacacacgtacatatacatgtatacatacacacacacatgtatgtatatgtatgtatgtgtttatgtatgcatgcgtatatacacacacacacacacacgttttattatatttaacaaacttgtatgtgaataataatatatatggtAATATTATTGTAGTACGTACTTGTCTGTGCGCATAATTATATATAGGCAATTAACGcacatgtaaatacaaacttttaaatTGTATGCGATTAGTCACGATCAACTGTCAAACGGCACTACTTTTGATGATCATTGATCCACGTTCCTATTGAGAAATGACGAGCCTGTGTTGTCTTAACGTTTTTGTATGTgaactgtttttttaaatgaaaggagAAGCATAAGTCCAAAAATAAGACAACTTAAATGTATTTCAGGgctaaaaaaaacagttgttcaCTGCGATTAAAACACTCTTTTCTCAGATTTTGTCTCGTATTTAGTCCAAATAttctttaatcaagaagcattttctagccatcaaacatattgtcttgttaagaaataatgagtcaaaatttagccaaaacttgattattttatttgttttaaggaaaaacgcGCTTAATTTGTACTTAATATTttggaaaacaagacaatattttttgcttgtcaaaaaaaagcttcttgatttaagagtttgtagatATGTGGACTATAAACGTGACAATAACTATGTATGAAAAGCATGTTTTGCAGTGTTGTGATGGACGCGAGTTGTCAAATGTCGGTCAGATGTTTGTAGAAGTGCTTTTTCTGTGTGTTTGACGTAACCGGCGTCGAGAAAAgcagtgtggtttaaaaaaagTGCCTATTTTTATCTGATGTTGGTCGTTCGTGCTCATAATTCAGGAGTTGTGGTTTTTGGAGAGTGTACTCGTTCATGAAGCCCCAATGATGCTGAGAtcaaaacagaattaataataacgacaattgtttaataaaagttttcatGTATTTATCTGTGTGCTGTGTTTTCGCATAATGTGTGATATTCTGGGTGTGTTTAATCGACATCTGTGATTTCAGCGGCGTAATTTCCACGTTTGTGCCACTGAAATGCTATTGGCTGGTTTTTATAATaggggaggggctactctgtCCCGCCCACGTCTTTATCTTTAAGTTCAATTTAAATCATGCATTAATCAAATcggcacatttcaaagcacttcagggAACTTTTAACCACATATTTTTACTATTGGGGAAAGAAAAAGGTGTATTACAATTCGAAACGTTTCGTAAAATTTCGTAACGCCAACTTAATTACCTGAAATTGATTTTAGCTAATCACGAAGCAGCTTTTGGTCTCCTCTGTGTACTGGTAAAGTCTAGaaaggatacagctgcagatactcGCATCAATGTAGCGTAATTTTTGTGACGCTGTGCAACAATTATTAAGACTTTTACAGTAGTACGTGGGGTTGTGTGGGcgtaaattaaatacaatttaattagtaATTTCATTAATAATATGAAAAACACTGTATAATTACCAGTTTAACATTACCGTGAGGGTTGTTGTGGGGGTAgacaataattaaatacaat

Function

symbol description
jmjd6 Predicted to enable 2-oxoglutarate-dependent dioxygenase activity and single-stranded RNA binding activity. Acts upstream of or within phagocytosis. Predicted to be located in cytoplasm; nucleolus; and nucleoplasm. Is expressed in brain; hatching gland; heart; pronephros; and somite. Orthologous to human JMJD6 (jumonji domain containing 6, arginine demethylase and lysine hydroxylase).

GO:

id name namespace
GO:0006325 chromatin organization biological_process
GO:0018395 peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine biological_process
GO:0006909 phagocytosis biological_process
GO:0030154 cell differentiation biological_process
GO:0002040 sprouting angiogenesis biological_process
GO:0006397 mRNA processing biological_process
GO:0007275 multicellular organism development biological_process
GO:0051260 protein homooligomerization biological_process
GO:0055114 oxidation-reduction process biological_process
GO:0048024 regulation of mRNA splicing, via spliceosome biological_process
GO:0008380 RNA splicing biological_process
GO:0005634 nucleus cellular_component
GO:0005654 nucleoplasm cellular_component
GO:0005730 nucleolus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0046872 metal ion binding molecular_function
GO:0070815 peptidyl-lysine 5-dioxygenase activity molecular_function
GO:0016491 oxidoreductase activity molecular_function
GO:0051213 dioxygenase activity molecular_function
GO:0033746 histone demethylase activity (H3-R2 specific) molecular_function
GO:0033749 histone demethylase activity (H4-R3 specific) molecular_function
GO:0003723 RNA binding molecular_function
GO:0003727 single-stranded RNA binding molecular_function

KEGG:

id description
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-040426-17 Predicted to enable 2-oxoglutarate-dependent dioxygenase activity and single-stranded RNA binding activity. Acts upstream of or within phagocytosis. Predicted to be located in cytoplasm; nucleolus; and nucleoplasm. Is expressed in brain; hatching gland; heart; pronephros; and somite. Orthologous to human JMJD6 (jumonji domain containing 6, arginine demethylase and lysine hydroxylase).

Ensembl:

ensembl_id ENSDARG00000102896

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00052256 True 5710 mRNA 0.41 6 60575113 60589292

Neighbor

gene id symbol gene type direction distance location
XLOC_026893 si:ch73-366l1.5 coding downstream 3895 60525982 ~ 60571218 (-)
XLOC_026892 AL954150.1 coding downstream 123485 60451500 ~ 60451628 (-)
XLOC_026891 si:ch211-214b16.4 coding downstream 173287 60338988 ~ 60401826 (-)
XLOC_026890 si:ch211-214b16.2 coding downstream 258995 60314274 ~ 60316118 (-)
XLOC_026889 si:ch211-214b16.3 coding downstream 266176 60285115 ~ 60308937 (-)
XLOC_026895 NA coding upstream 4843 60594135 ~ 60602432 (-)
XLOC_026896 ubald2 coding upstream 95617 60684909 ~ 60711127 (-)
XLOC_026897 anks4b coding upstream 223559 60812851 ~ 60827402 (-)
XLOC_026898 DXO coding upstream 261757 60851049 ~ 60856157 (-)
XLOC_026899 NA coding upstream 267730 60857022 ~ 60861145 (-)
XLOC_026886 NA non-coding downstream 447552 60126527 ~ 60127561 (-)
XLOC_026885 NA non-coding downstream 506162 60067382 ~ 60068951 (-)
XLOC_026884 NA non-coding downstream 519354 60036101 ~ 60055759 (-)
XLOC_026881 NA non-coding downstream 691627 59871526 ~ 59883486 (-)
XLOC_026901 NA non-coding upstream 360276 60949568 ~ 60956010 (-)
XLOC_026917 NA non-coding upstream 1209831 61799123 ~ 61844869 (-)
XLOC_026921 NA non-coding upstream 1609896 62199188 ~ 62201944 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000351_01139938_01149887 JMJD6 coding CI01000351 null 1139894 ~ 1149995 (-)
bowfin (Amia calva) AMCG00013048 jmjd6,LOC107654591 coding CM030125.1 CM030125.1 18244195 ~ 18255349 (-)