XLOC_028651 (prdm4)


Basic Information

Item Value
gene id XLOC_028651
gene name prdm4
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 14917502 ~ 14926637 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00055562
ttttgttttcataccACAAATCGTACACGAAGGGATTAATTTGTGGTGTTTATaATCCAAGAATGAATCCATCACACCAATGCCTTAACTGATCTGTGTCAGGATGAATGACATGAACCTCAGCCCAGTGGGCATGGACCAGCTCAGTGTGCCTGTGAGTGCAAGTCACCTCGGCCTCCCCACATCCCCAACCCACAACCCTATCACCACTCCAGGCATGCCAGTTGCTATTCCAAGCTTGGGCCCATCACTTGGGCCCCTTCCTTCTGCGCTGTCCCTGATGTTACCCATGGGTCCTTTAGGGGACAGAGGAGTTATGTGTGGCCTTCCAGAGAGAAATTATACACTACCACCTCCTCCATACCCACACTTGGAAAGCAGCTACTTCAGACATATCCTACCAGGTATTCTGTCATATCTAGCAGATCGTCCACCACCTCAATACATACACCCTAGCAGCCTCAACATGGATGGCACTCTCTCTGTGTCCAACAACAACCCTTCTGGCTTAGACCCCTATAGTGGCCCCGGTGGCCCTCTAGAACAAGGCCTGGTGACTTTAGACACACGACAGGTCGGAGGCCAAGCCGATCTCCACCAGGGAGGCTCTCACGAAGTCCAGCTGGGCGCCACAGGACTAACCATGGAGTCCCGTGTGAGCAGTCCGATGTCTCCTGACGGGATAGAGGAAGACTTAGCCACCATGGAGGGTGTCGTGGTGGCAGAAAGCCAACAGCAGCTCGGCAGCAGATCTCAGACTCACGAGGGTTTAGCAGGCGTGGACTCTTCAGGAGGTGTTATGCCTCTTCACGGAGCAGGACTGGAGCTCCCGGTGGTGATGGAGCAGGAACACATGGGTGGAAGAGTAGGATCTGGCGGTACAGGAGCGGGTGGTCCCGGGACGCTGAGTGAAGCCTTGCATTCGGCTGGAGAACTGAACTCTGGGGTGGTTAGTGTGGTGCTCACGGGGGCAATGCTGCCGCAGACACAACTAGAGCGAGTATCTCTACACGGGCCTTCAGGACTGGGACTGGAGCAGGTCAATGTGTCCGCACAAGTGTCTCTTGGACCGGACAACAGTTTGGTACTGGTGAACTCTACCTTACAGCTTGAGGATTCCACATCTAATAAGGAAAATATGGCTACTGCCTTCAACATATGGTGCACTTTATGTGAGCGGTCTTATCCCTCAGATTGTCCTGAACATGGACCTGTCACATTCATCCCAGACACACCCATTCAGAGCAGAGCCCGCCTCTCTCTGCCCCGCCCCCTGTGCCTTCGCATTTCTGTCACCGATGAGCCCATTGGTGTGTTTTCTAGAGAGTCCATACCCTCCAGAACCTGCTTTGGGCCGATGGTTGGACAGCACTGCAGCAGTGTGGAACTGACAGACTGGTCAGACAAGGACACCCCTCAAATATGGAAGATGTTTCACAACGACATCCAAGAATTCTGTATTGTGACGACAGATGAGCATGAATGCAACTGGATGATGTTTGTGAGGAAAGCAAGAACTACAGGGGAGCAGAATCTGGTGGCGTATATTGACAATGGAAAGCTGTATTTCTGCACAACCAGAGAGATTCTGCCCGATCAGGAGCTACTGTTTTATTTCAGCAGGGACTACAGCAGACAGCTAGGTGTTCCCAGAGTTCCAGAGGGCCAGATCTGTCATTGTGGAAAAGAATGTGCCTCCTTCACAGAGTTCAAATCTCACCTCGGCAGTCACGCTCAGAGCCACAGTCCTACCCAGGACCATCCCGCTCACCCCGGCCACAGCCAGTCGCATTCGCAGGACAAGGTGACCAATGAGCCGCTCCGCTCCACCTCGTCCCCACAGTGGCAGTGCCATTCAGATGTGAATGAGCATTCCAGCAGCAGCAGCGGTAATGGGCACGGCCGCGAGAGGAAGTTCAAATGCAGCATGTGCACACGAGCGTTCACTACCTCCACTAAACTAAACGTGCATTTCATGGGTCACATGGGCATGAGGCCACACAAATGCAGCTACTGCAGCAAAGCCTTCAGTGATCCCAGCAACCTCAGAAAACACCTGAGAATTCATACAGGTCAGAAGAACTTCAGGTGTACAGTGTGTGGGAAGTCTTTTACTCAGAAGGCACATGTGGAATCTCATATGGTTATACACATCGGTGCCAAAAACCTTAAATGTGACCATTGTGACAAGATGTTTGTGCGAAAACAAGATCTCAAACAGCACATGTACTCACATTCACTAGACCGGCAGATAAACTGTCCAAAGTGTGACAAGCAGTTCCTAAAGCCTGACCATCTTAAAAAACACTTAAACTCTCATGAAGGGAAGCGGGACTTCATCTGTGAAAAGTGCAACAAGGGTTTCCTCACTAAATACCACCTCACACGCCACCTCAAAATCTGCAAGGGCCCAAAGATCGGCCGGGGGGCCACACAGGgtgaggaagaagaggaggaagatgaagaggaggaagaagaagaggacGAAGAGAGAGAAGCTGAGATCCATCCAGCCAATCAGGAGGAGTGTGCAATCGGAATGGGTGGTTATGCttctgaaaaaaatatgtaaCTTATACAGTGCGTAACAGGATGAATCCAAGCCTATTTATTATTCCTTTTTGTTCTGCCCATTAGACGCCTTTAAGTCCTTTTGCCAAACTTTATATATCATTCACCAACAGAAATCTGTAGATTTTAATtgagttaaaaaatacattacaaagtttcaatgttaaaggtgcagtaggtaattgtc
>TCONS_00055563
GGATGAATGACATGAACCTCAGCCCAGTGGGCATGGACCAGCTCAGTGTGCCTGTGAGTGCAAGTCACCTCGGCCTCCCCACATCCCCAACCCACAACCCTATCACCACTCCAGGCATGCCAGTTGCTATTCCAAGCTTGGGCCCATCACTTGGGCCCCTTCCTTCTGCGCTGTCCCTGATGTTACCCATGGGTCCTTTAGGGGACAGAGGAGTTATGTGTGGCCTTCCAGAGAGAAATTATACACTACCACCTCCTCCATACCCACACTTGGAAAGCAGCTACTTCAGACATATCCTACCAGGTATTCTGTCATATCTAGCAGATCGTCCACCACCTCAATACATACACCCTAGCAGCCTCAACATGGATGGCACTCTCTCTGTGTCCAACAACAACCCTTCTGGCTTAGACCCCTATAGTGGCCCCGGTGGCCCTCTAGAACAAGGCCTGGTGACTTTAGACACACGACAGGTCGGAGGCCAAGCCGATCTCCACCAGGGAGGCTCTCACGAAGTCCAGCTGGGCGCCACAGGACTAACCATGGAGTCCCGTGTGAGCAGTCCGATGTCTCCTGACGGGATAGAGGAAGACTTAGCCACCATGGAGGGTGTCGTGGTGGCAGAAAGCCAACAGCAGCTCGGCAGCAGATCTCAGACTCACGAGGGTTTAGCAGGCGTGGACTCTTCAGGAGGTGTTATGCCTCTTCACGGAGCAGGACTGGAGCTCCCGGTGGTGATGGAGCAGGAACACATGGGTGGAAGAGTAGGATCTGGCGGTACAGGAGCGGGTGGTCCCGGGACGCTGAGTGAAGCCTTGCATTCGGCTGGAGAACTGAACTCTGGGGTGGTTAGTGTGGTGCTCACGGGGGCAATGCTGCCGCAGACACAACTAGAGCGAGTATCTCTACACGGGCCTTCAGGACTGGGACTGGAGCAGGTCAATGTGTCCGCACAAGTGTCTCTTGGACCGGACAACAGTTTGGTACTGGTGAACTCTACCTTACAGCTTGAGGATTCCACATCTAATAAGGAAAATATGGCTACTGCCTTCAACATATGGTGCACTTTATGTGAGCGGTCTTATCCCTCAGATTGTCCTGAACATGGACCTGTCACATTCATCCCAGACACACCCATTCAGAGCAGAGCCCGCCTCTCTCTGCCCCGCCCCCTGTGCCTTCGCATTTCTGTCACCGATGAGCCCATTGGTGTGTTTTCTAGAGAGTCCATACCCTCCAGAACCTGCTTTGGGCCGATGGTTGGACAGCACTGCAGCAGTGTGGAACTGACAGACTGGTCAGACAAGGACACCCCTCAAATATGGAAGATGTTTCACAACGACATCCAAGAATTCTGTATTGTGACGACAGATGAGCATGAATGCAACTGGATGATGTTTGTGAGGAAAGCAAGAACTACAGGGGAGCAGAATCTGGTGGCGTATATTGACAATGGAAAGCTGTATTTCTGCACAACCAGAGAGATTCTGCCCGATCAGGAGCTACTGTTTTATTTCAGCAGGGACTACAGCAGACAGCTAGGTGGGTGTTCCCAGAGTTCCAGAGGGCCAGATCTGTCATTGTGGAAAAGAATGTGCCTCCTTCACAGAGTTCAAATCTCACCTCGGCAGTCACGCTCAGAGCCACACAGCAGCAGCGGTAATGGGCACGGCCGCGAGAGGAAGTTCAAATGCAGCATGTGCACACGAGCGTTCACTACCTCCACTAAACTAAACGTGCATTTCATGGGTCACATGGGCATGAGGCCACACAAATGCAGCTACTGCAGCAAAGCCTTCAGTGATCCCAGCAACCTCAGAAAACACCTGAGAATTCATACAGGTCAGAAGAACTTCAGGTGTACAGTGTGTGGGAAGTCTTTTACTCAGAAGGCACATGTGGAATCTCATATGGTTATACACATCGGTGCCAAAAACCTTAAATGTGACCATTGTGACAAGATGTTTGTGCGAAAACAAGATCTCAAACAGCACATGTACTCACATTCACTAGACCGGCAGATAAACTGTCCAAAGTGTGACAAGCAGTTCCTAAAGCCTGACCATCTTAAAAAACACTTAAACTCTCATGAAGGGAAGCGGGACTTCATCTGTGAAAAGTGCAACAAGGGTTTCCTCACTAAATACCACCTCACACGCCACCTCAAAATCTGCAAGGGCCCAAAGATCGGCCGGGGGGCCACACAGGgtgaggaagaagaggaggaagatgaagaggaggaagaagaagaggacGAAGAGAGAGAAGCTGAGATCCATCCAGCCAATCAGGAGGAGTGTGCAATCGGAATGGGTGGTTATGCttctgaaaaaaatatg

Function

symbol description
prdm4 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of gene expression. Predicted to act upstream of or within transcription by RNA polymerase II. Predicted to be active in nucleus. Is expressed in presumptive neural retina; retina; and somite. Orthologous to human PRDM4 (PR/SET domain 4).

GO:

id name namespace
GO:0006366 transcription by RNA polymerase II biological_process
GO:0010468 regulation of gene expression biological_process
GO:0005634 nucleus cellular_component
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:1990226 histone methyltransferase binding molecular_function
GO:0042054 histone methyltransferase activity molecular_function

KEGG:

id description
ko04722 Neurotrophin signaling pathway
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-041210-131 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of gene expression. Predicted to act upstream of or within transcription by RNA polymerase II. Predicted to be active in nucleus. Is expressed in presumptive neural retina; retina; and somite. Orthologous to human PRDM4 (PR/SET domain 4).

Ensembl:

ensembl_id ENSDARG00000017366

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00055562 False 2758 mRNA 0.50 12 14917502 14926637
TCONS_00055563 True 2339 mRNA 0.52 11 14917691 14926106

Neighbor

gene id symbol gene type direction distance location
XLOC_028650 akr1b1.2 coding downstream 2234 14906608 ~ 14915268 (-)
XLOC_028649 si:dkey-14k9.3 coding downstream 18389 14895506 ~ 14899113 (-)
XLOC_028648 NA coding downstream 24261 14764350 ~ 14893241 (-)
XLOC_028647 BX571719.1 coding downstream 172811 14744576 ~ 14744691 (-)
XLOC_028646 BX571719.3 coding downstream 173847 14713008 ~ 14743655 (-)
XLOC_028652 slc26a5 coding upstream 5900 14932537 ~ 14954327 (-)
XLOC_028653 NA coding upstream 48695 14975332 ~ 14980376 (-)
XLOC_028654 klhdc10 coding upstream 65152 14991789 ~ 15003893 (-)
XLOC_028655 BX571796.1 coding upstream 79579 15006216 ~ 15006700 (-)
XLOC_028656 nrf1 coding upstream 154748 15081385 ~ 15103696 (-)
XLOC_028642 NA non-coding downstream 472612 14430963 ~ 14444890 (-)
XLOC_028641 NA non-coding downstream 556654 14346867 ~ 14360848 (-)
XLOC_028636 CR786571.1 non-coding downstream 738022 14176521 ~ 14179480 (-)
XLOC_028657 AL590150.2 non-coding upstream 208602 15135239 ~ 15140224 (-)
XLOC_028658 NA non-coding upstream 274472 15201109 ~ 15206403 (-)
XLOC_028660 NA non-coding upstream 517715 15444352 ~ 15454665 (-)

Expression


Co-expression Network