XLOC_004170 (phf2)


Basic Information

Item Value
gene id XLOC_004170
gene name phf2
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 27644524 ~ 27702835 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00007970
CTTTCTCTCGTCCCGGGAAACCCTAAGAAGCAGCCGCAGCGTTTAATGAGCTCCATTCATCTGGACCAGCATGACCGAGGCGATTTTTCCCGTCTTGTAGACTGACGTAACAATATTACAATGAAAGGATGCATTTTCTTGGGCTTCACGAGAGTCTCGGAGCTCGTATAGTCACCAGGGGGCATGAACACGTCAATGCAGCGCGGGAAACATTTTAACATCGCAACGTTGTAACGTCGGATCTGAGGAACGGTCGAATGGACGCAGGAGCAGCTCCGCGGCTCTTCGTATCGCTGTAGTTTGTGTTACGGGAGGTTCCTGCTGCCCCCATCCATCTCTCCGGCTGTTGTTGTGAATTGATCTAACATGGCGACTGTACCCGTGTATTGCATCTGCAGATTACCTTACGACGTAACCCAGTTTATGATCGAATGCGACGCCTGCAAAGACTGGTTTCACGGCAGCTGTGTGGGAGTGGATGAAGATGAAGCACCAGATATTGACATCTATCACTGTCCTAACTGTGAAAAAACCCACGGCAAATCCACCTtaaaaaagaaaaagagctggaataAGCATGACACGGGGCAGAGCGGAGACGTCAGACCAGTTCAGAACGGCAGTCAGGTGTTCATAAAAGAGCTACGCAGCAGAACATTCCCCAGTTCAGAAGATGTGGTGGTCAAACTGTCTGGAAGTCAGCTGACATTGGAGTACCTTGAGGAAAATGGCTTCAACGAGCCAATTCTCATCCAGAAGAAAGATGGTTTGGGGATGGCCATGCCCGCACCCACGTTTTACGTCAGTGATGTGGAAAACTATGTTGGGCCTGATGTTCTTGTGGATGTCGTTGATGTCACCAAACAGACAGACAGCAAGATGAAGTTAAAAGAGTTTGTTGATTATTACTACAGCACAAATAGAAAGAAAGTATTAAATGTGATCAACTTGGAGTTTTCAGATGCAAGAATGGCCAATATTGTCGAGAGTCCGCAGATAGTTCGGAAGTTATCCTGGGTGGAAAACTACTGGCCTGACGATGCGCTGTTGGGGAAGCCCAAAGTGTCCAAATACTGTCTCATCTGTGTGAAAGACAGCTATACAGACTTCCACATCGAGTGTGGAGGAGCCTCTGTGTGGTATCACGTACTCAAGGGAGAGAAAATCTTCTTCCTGATCAAGCCCACGTCTGCCAACCTTTCCCTGTATGAGCGCTGGAGATCCTCCTCCAACCACAGCGAGATGTTTTTTGCTGACCAAGTAGACAAATGTTACAAGTGCACACTCAAACAAGGGCAAACTCTATTCATTCCTTCAGGATGGATCAATGCAATACTCACTCCTGTAGACTGCTTAGCCTTCTCTGGGCATTTTGTCCACAGTTTAAGCGTGGAGATGCAAATGAGAGCATATGAGGTGGAAAAAAGACTCAAAGTTGCCAGCCTCACTCCATTTTCAAACTTCGAAACAGCGTGTTGGTATGTGGGGAAATACTACCTGGAGCAGTTTAAAGGTTTACACAAGGCGAACAAGCAGCCACCTCCTTACTTGGTACACGGTGCCAAAATTGTCAATGGAGCATTCAGATCGTGGACTAAAAAACAGGCTCTTTTAGAACATGAGGACGAGCTTCCAGAAAACATGAAGCCAGCACAGCTCATTAAAGACCTTGCCAAAGAGATTCGGATTGCAGAGGTGAAACAAGTCGTCAGTGACTCTCAAAATGCGACAAAAGCCATAAAAAGTGAACCCAGCAACTCAAAGCCCCCGGCAGAGGAACCTCCGTCTGCTCTGTCAGAACCAGAAGAGCCCATGTCCCCTGCCCACGTCTCCAGCCCTTCAGGAGATAAGCCAGCCAGGAAGAAAGTCCCAAAGCCACCCAAAATGCCCAAGGCTCCAAAACCACCGAAGGAACCCAAAATAAAAGAGGGAGGCAAAAAGAAGGCCAAGAAAGTGAAAGAAGGTGTTATACCTGAGAAAAAGCCCTCGAGTCTGGCAGCTCTTGAATCCCATGCAAAGGACATCCTGAACAAGATGGACCAGCCCAAAAAACTGATTAAAACCGGGATGAGTATCATGGAGAAAGAGACGAATAAACCGAATGACGTCAAGAAGTTTGAGATGATCCGAGAGCACAATAAGAACAAGACGGAGTCCAAATGGAAATATAAGAACAGCAAACCCGATTCCTTATTGAAAATGGAAGAAGAGCACAAATTCGACAAAAGTCTACTCAGCCATAAAGACAACAAATTTGCATTTTCGTTATCGAATAAGAAGTTGCTGGGCTCAAAGATGCTGAAGACCCAGACCAATTCCAGTGTTTTTGGCTCGAtacagaacattaaagaagaaaaGCCCAAGCCTGTGAGAGACGAGTACGAGTACGTCTCTGATGAAGGAGAGCTGAAGATTGAGGAATTCCCAATCAGGAGGAAAAAGAACGCAGTCAAGAGAGAGTTTTCTTttttatcaAACATCAAAGAGCCAATTCAGCCATCAAAAAAGCCAAAGCTACCGCCGTCGGACATGAAGAGTCCAGATACATCGGATGAGGAATCGCTTCACATAGACACCGAGGCCAAGACAGACGTCAAAGGGCGCAACTCAAAGGTCTCGAAAAAGAAAGGTGGCAGTTCAGCTGGGATCCTGGATCTCCTGCAGGCCAGCAAACAAGTGGGCGGCATTGACTACAGCAACAACAGTCAGCCACCTGCATCCCCCAGCACACAGGAGGCCATCCAGGGCATGTTGTCCATGGCTAACCTGCAGTCATCGGACTCTTGCCTGCAACCCTTCTGGAGCAATAGCCAAGCTAAGAACAACTCGCACAGCAGCGCAGCCAGCAAGAAGCCGAGCGGTGCGGCCGGAGCAGGAGGGAACAGCAAACGACCTGCTAAACGCTTGCCCAAAAAGACCCAAAAGAGCAGCAGCGTGGACAGTTCGGACATGTTCGATGATGACCAGGACCATCTGGAGGCTTGCTTTAAGGACTCGGATTATGTTTATCCGTCTCTGGAATCAGAGGAGGACAACCCCATTTTCAAATCGAGAtcgaaaaaaaggaaaaatacagACGACACTCCATACAGTCCAACAGCTCGAGTTGGGCCCACTGTGCCGCGGCAAGAGAGACCAGCTCGGGAAGGGGCACGTGTGGCATCTATAGAGACAGGACTGGCAGCCGCAGCAGCTAAATTGTCGCATCAGGAGGAGCAGAAGatcaagaagaagaaaaagagcgCCAAAAAGAAGCCCATAGTTGCAGAGGAGTCTCACAAACTCTCTCATGACAGCAGCTCTCCAGAACCCACTCCAGACTCCGAGAGCAACATGGCCGATCACGAATACAGCACTGGAACGGGCAAAAGCGCCGGCGGCTCGCAACCCATGGCCCCCGGAGTCTTCCTCAGCCACAGACGGccttcatcatcatcgtcatctcAGAATGCCTCATCAGTCCTGCCAGCAAAAGTCGAACGAGGGAACTCGACAGATTCCAAAGCCAAGAGGCTAAAGAAAGGAATGGCCACCGCCAAACAGAGACTTGGAAAAATCTTAAAGATTCACCGTAATGGCAAACTCCTGCTGTAACACGGACAATGAGGGCGACTCAGACTTTCTCCTGATGTTTATGGACCCTCGGACTGatccctccctctctccctccatGAGACTGAAACAGACGGGAGGACGCGGAGTAAAAAAATCATAACGGATCCCACAAGTTTTCAATTTCTAAGAAGAACATAGCTCAGATAGGTTTTTGCCTCTTTTACTTTATAACTTTCAGATATTAAAAAATGTACAGAATACCTGCTATTAATATTTTGTAAgaagatttttgtcttgttttactaCGGCTATCAgttttatcaggggttgctaaTATATTATAAGATACATAGCAGTCATTCCAAGATAAAGAAAGTATCCCCTGCATGTATTCCAGTTGCATGCATTATAATTTTGAAGGGGGAAGAGTTTGCTGGAAGGTTGCACACGGAAAGTTCATTACTGCTTTTTGGATGTGGcttatcattcatttttttaaacaactattTCTAAACATATGATGATATTCAATAACTTCCCGAGtgattttgatttagatttttaccCTTTTAAGTTTCCTTAAACAAAAGAGATGAACcgacaacacaaaaaaaacacgGCTAAATAAAAAGAGTACTTTTCTGTTTGCAAAGCACTATCACAGATGATATTTATTGACTTAATATAATTTTTCATGTCATAGGTAGATTTGAAAAAGCCAGAAGGCACTTACAAAACATCAGTGAAGCACAAATAGGAATTAGTAAAGCGGCTTTATGttgttattcttattttatttactaacatAGGAAAAGAAATATGATTTTGTGATGAAAAAACGTCGATTTTTATATATTGACGGATTATTAAACACACATATCAATATCAAACCATATTTCCAGTAAGTTTCATGtctgaaatatttaatttcagccatacaaaagttacattttatttatatttatatatatatttttttagacatTGATACTACAATCAATCGCATGTCATCCTGTTTTTCGCATTATGTTATTGTTTGACAATGTAGCTCTTATTACAGTTCCATACGAAACACTCGGCCCAAACAAAAACAGACAAGGTAACACTACATCAATGGGATCTCCAGCACTGATGATAAGCCTCATCCAGGACATTTCACTACATGGGGATACTTTCTGTCTTCTGTTTGTTTCACAGGCAGCACCAGTTACCCTAGAATGAAATATGCATTTATATTGCTTCACAGTACAGTATGTAGAATGTAGCCTGTATATAGCTTTTTAAATGACTACTTTTTGTATCCTTTTTTTTCCTCCTTAATACttcattatacatttttactaGTTTTTGCTAATTACAGacggaaaaatatatataaagatatagaAATAGTCAGTacgtttaaaaattaaatgttttcgtTTGACACAGAATACCAGATTTGAtttaatcatttctttttttttttttttacaattgttttgtttcattctGTTACATTAGACAAAAGGTGTTGCCTGGAGAACAAAATAAACAGTGTAACATTTATTCTCATATGGCCTTACATGCATAAAACCATGTGTATTATGATTCATTTATGATGGggagaagagagaaaaaaaatcaagtttctACGACCAGCCTGACATTTGAGCTAAAATACCCCTGATggattttaaagttattttactaGCACCTTGTGAAGTGTTTTCTGTGTCAGTgatgtaatttattaatgtttgtaGCCTTTTATACTTGTATAATTCTTAAGAGGTTTTCTTTGAAATATTTCATCAGTCTGTGAGCCCCTTAGGACACTTCTATCATTAACATTGGGCAATAGttccttttattttttgtcttagcAAAACCATATGTCTTTATCGTTTTCATCAAATCAAGTGCAACTGCTCATCAATACGAAATGTtacatcgttattattattattattaagcagctATTTTAAAGATCCATTCTATCATGCCATGAGTTTTATTTTTGGTAATAGAGTATGTACATTCTTAACCAGGTTTACTGTGCTCATAAATTGCAGTGTTTTAGTTACCAATGTAAATCTTGTATCCACCTTTCCCAATCGAAACACTCAGAATCTTTGTCAATGGAActatttcaggtttttatttgtaCAAAATGTGTGTTGCTTTGTTgtggtttatttttatatgttc
>TCONS_00007971
AGACTCTGCTGCAGCTGCTTCGACGGTCGGCTGGAGATCCTGCCGGTGGATTTTCGTCTTTCTCTCGTCCCGGGAAACCCTAAGAAGCAGCCGCAGCGTTTAATGAGCTCCATTCATCTGGACCAGCATGACCGAGGCGATTTTTCCCGTCTTGTAGACTGACGTAACAATATTACAATGAAAGGATGCATTTTCTTGGGCTTCACGAGAGTCTCGGAGCTCGTATAGTCACCAGGGGGCATGAACACGTCAATGCAGCGCGGGAAACATTTTAACATCGCAACGTTGTAACGTCGGATCTGAGGAACGGTCGAATGGACGCAGGAGCAGCTCCGCGGCTCTTCGTATCGCTGTAGTTTGTGTTACGGGAGGTTCCTGCTGCCCCCATCCATCTCTCCGGCTGTTGTTGTGAATTGATCTAACATGGCGACTGTACCCGTGTATTGCATCTGCAGATTACCTTACGACGTAACCCAGTTTATGATCGAATGCGACGCCTGCAAAGACTGGTTTCACGGCAGCTGTGTGGGAGTGGATGAAGATGAAGCACCAGATATTGACATCTATCACTGTCCTAACTGTGAAAAAACCCACGGCAAATCCACCTtaaaaaagaaaaagagctggaataAGCATGACACGGGGCAGAGCGGAGACGTCAGACCAGTTCAGAACGGCAGTCAGGTGTTCATAAAAGAGCTACGCAGCAGAACATTCCCCAGTTCAGAAGATGTGGTGGTCAAACTGTCTGGAAGTCAGCTGACATTGGAGTACCTTGAGGAAAATGGCTTCAACGAGCCAATTCTCATCCAGAAGAAAGATGGTTTGGGGATGGCCATGCCCGCACCCACGTTTTACGTCAGTGATGTGGAAAACTATGTTGGGCCTGATGTTCTTGTGGATGTCGTTGATGTCACCAAACAGACAGACAGCAAGATGAAGTTAAAAGAGTTTGTTGATTATTACTACAGCACAAATAGAAAGAAAGTATTAAATGTGATCAACTTGGAGTTTTCAGATGCAAGAATGGCCAATATTGTCGAGAGTCCGCAGATAGTTCGGAAGTTATCCTGGGTGGAAAACTACTGGCCTGACGATGCGCTGTTGGGGAAGCCCAAAGTGTCCAAATACTGTCTCATCTGTGTGAAAGACAGCTATACAGACTTCCACATCGAGTGTGGAGGAGCCTCTGTGTGGTATCACGTACTCAAGGGAGAGAAAATCTTCTTCCTGATCAAGCCCACGTCTGCCAACCTTTCCCTGTATGAGCGCTGGAGATCCTCCTCCAACCACAGCGAGATGTTTTTTGCTGACCAAGTAGACAAATGTTACAAGTGCACACTCAAACAAGGGCAAACTCTATTCATTCCTTCAGGATGGATCAATGCAATACTCACTCCTGTAGACTGCTTAGCCTTCTCTGGGCATTTTGTCCACAGTTTAAGCGTGGAGATGCAAATGAGAGCATATGAGGTGGAAAAAAGACTCAAAGTTGCCAGCCTCACTCCATTTTCAAACTTCGAAACAGCGTGTTGGTATGTGGGGAAATACTACCTGGAGCAGTTTAAAGGTTTACACAAGGCGAACAAGCAGCCACCTCCTTACTTGGTACACGGTGCCAAAATTGTCAATGGAGCATTCAGATCGTGGACTAAAAAACAGGCTCTTTTAGAACATGAGGACGAGCTTCCAGAAAACATGAAGCCAGCACAGCTCATTAAAGACCTTGCCAAAGAGATTCGGATTGCAGAGAATGCGACAAAAGCCATAAAAAGTGAACCCAGCAACTCAAAGCCCCCGGCAGAGGAACCTCCGTCTGCTCTGTCAGAACCAGAAGAGCCCATGTCCCCTGCCCACGTCTCCAGCCCTTCAGGAGATAAGCCAGCCAGGAAGAAAGTCCCAAAGCCACCCAAAATGCCCAAGGCTCCAAAACCACCGAAGGAACCCAAAATAAAAGAGGGAGGCAAAAAGAAGGCCAAGAAAGTGAAAGAAGGTGTTATACCTGAGAAAAAGCCCTCGAGTCTGGCAGCTCTTGAATCCCATGCAAAGGACATCCTGAACAAGATGGACCAGCCCAAAAAACTGATTAAAACCGGGATGAGTATCATGGAGAAAGAGACGAATAAACCGAATGACGTCAAGAAGTTTGAGATGATCCGAGAGCACAATAAGAACAAGACGGAGTCCAAATGGAAATATAAGAACAGCAAACCCGATTCCTTATTGAAAATGGAAGAAGAGCACAAATTCGACAAAAGTCTACTCAGCCATAAAGACAACAAATTTGCATTTTCGTTATCGAATAAGAAGTTGCTGGGCTCAAAGATGCTGAAGACCCAGACCAATTCCAGTGTTTTTGGCTCGAtacagaacattaaagaagaaaaGCCCAAGCCTGTGAGAGACGAGTACGAGTACGTCTCTGATGAAGGAGAGCTGAAGATTGAGGAATTCCCAATCAGGAGGAAAAAGAACGCAGTCAAGAGAGAGTTTTCTTttttatcaAACATCAAAGAGCCAATTCAGCCATCAAAAAAGCCAAAGCTACCGCCGTCGGACATGAAGAGTCCAGATACATCGGATGAGGAATCGCTTCACATAGACACCGAGGCCAAGACAGACGTCAAAGGGCGCAACTCAAAGGTCTCGAAAAAGAAAGGTGGCAGTTCAGCTGGGATCCTGGATCTCCTGCAGGCCAGCAAACAAGTGGGCGGCATTGACTACAGCAACAACAGTCAGCCACCTGCATCCCCCAGCACACAGGAGGCCATCCAGGGCATGTTGTCCATGGCTAACCTGCAGTCATCGGACTCTTGCCTGCAACCCTTCTGGAGCAATAGCCAAGCTAAGAACAACTCGCACAGCAGCGCAGCCAGCAAGAAGCCGAGCGGTGCGGCCGGAGCAGGAGGGAACAGCAAACGACCTGCTAAACGCTTGCCCAAAAAGACCCAAAAGAGCAGCAGCGTGGACAGTTCGGACATGTTCGATGATGACCAGGACCATCTGGAGGCTTGCTTTAAGGACTCGGATTATGTTTATCCGTCTCTGGAATCAGAGGAGGACAACCCCATTTTCAAATCGAGAtcgaaaaaaaggaaaaatacagACGACACTCCATACAGTCCAACAGCTCGAGTTGGGCCCACTGTGCCGCGGCAAGAGAGACCAGCTCGGGAAGGGGCACGTGTGGCATCTATAGAGACAGGACTGGCAGCCGCAGCAGCTAAATTGTCGCATCAGGAGGAGCAGAAGatcaagaagaagaaaaagagcgCCAAAAAGAAGCCCATAGTTGCAGAGGAGTCTCACAAACTCTCTCATGACAGCAGCTCTCCAGAACCCACTCCAGACTCCGAGAGCAACATGGCCGATCACGAATACAGCACTGGAACGGGCAAAAGCGCCGGCGGCTCGCAACCCATGGCCCCCGGAGTCTTCCTCAGCCACAGACGGccttcatcatcatcgtcatctcAGAATGCCTCATCAGTCCTGCCAGCCAAGAGGCTAAAGAAAGGAATGGCCACCGCCAAACAGAGACTTGGAAAAATCTTAAAGATTCACCGTAATGGCAAACTCCTGCTGTAA

Function

symbol description
phf2 Predicted to enable several functions, including histone demethylase activity (H3-K9 specific); transcription coactivator activity; and transition metal ion binding activity. Predicted to be involved in negative regulation of ribosomal DNA heterochromatin assembly; protein demethylation; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within chromatin organization. Predicted to be located in kinetochore and nucleolus. Orthologous to human PHF2 (PHD finger protein 2).

GO:

id name namespace
GO:0006325 chromatin organization biological_process
GO:0061188 negative regulation of ribosomal DNA heterochromatin assembly biological_process
GO:0055114 oxidation-reduction process biological_process
GO:0000775 chromosome, centromeric region cellular_component
GO:0000776 kinetochore cellular_component
GO:0000777 condensed chromosome kinetochore cellular_component
GO:0005634 nucleus cellular_component
GO:0005694 chromosome cellular_component
GO:0005730 nucleolus cellular_component
GO:0005506 iron ion binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0016491 oxidoreductase activity molecular_function
GO:0051213 dioxygenase activity molecular_function
GO:0035064 methylated histone binding molecular_function
GO:0003713 transcription coactivator activity molecular_function
GO:0008270 zinc ion binding molecular_function
GO:0032454 histone demethylase activity (H3-K9 specific) molecular_function

KEGG:

id description
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-050302-10 Predicted to enable several functions, including histone demethylase activity (H3-K9 specific); transcription coactivator activity; and transition metal ion binding activity. Predicted to be involved in negative regulation of ribosomal DNA heterochromatin assembly; protein demethylation; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within chromatin organization. Predicted to be located in kinetochore and nucleolus. Orthologous to human PHF2 (PHD finger protein 2).

Ensembl:

ensembl_id ENSDARG00000018691

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00007970 False 5745 mRNA 0.42 22 27644524 27702778
TCONS_00007971 True 3588 mRNA 0.49 22 27646675 27702835

Neighbor

gene id symbol gene type direction distance location
XLOC_004169 NA coding downstream 19059 27543578 ~ 27625465 (-)
XLOC_004168 ptpdc1a coding downstream 106863 27511277 ~ 27537661 (-)
XLOC_004167 NA coding downstream 136551 27502205 ~ 27507973 (-)
XLOC_004166 wnt7aa coding downstream 143497 27486584 ~ 27501027 (-)
XLOC_004164 iqsec1b coding downstream 586952 26704181 ~ 27057572 (-)
XLOC_004171 fam120a coding upstream 2195 27705030 ~ 27739049 (-)
XLOC_004172 cass4 coding upstream 42783 27745618 ~ 27778831 (-)
XLOC_004173 BX601648.1 coding upstream 80923 27783758 ~ 27806767 (-)
XLOC_004174 NA coding upstream 98024 27800859 ~ 27809715 (-)
XLOC_004175 cstf1 coding upstream 114466 27817301 ~ 27827533 (-)
XLOC_004063 CR854846.1 misc downstream 11516846 16127382 ~ 16127678 (-)
XLOC_004019 CR450764.8 misc downstream 14952833 12691395 ~ 12691691 (-)
XLOC_004015 CR450764.4 misc downstream 15022757 12621518 ~ 12621767 (-)
XLOC_004013 CABZ01022569.1 misc downstream 15053228 12590999 ~ 12591296 (-)
XLOC_004008 BX000700.19 misc downstream 15131262 12512966 ~ 12513262 (-)
XLOC_004165 CR847934.1 non-coding downstream 896095 26748292 ~ 26748429 (-)
XLOC_004152 CR933820.1 non-coding downstream 1974569 25669839 ~ 25669955 (-)
XLOC_004150 NA non-coding downstream 2167544 25475305 ~ 25476980 (-)
XLOC_004180 NA non-coding upstream 494122 28196957 ~ 28200504 (-)
XLOC_004181 NA non-coding upstream 716041 28418876 ~ 28424141 (-)
XLOC_004182 NA non-coding upstream 810907 28513742 ~ 28522344 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000306_04315832_04340864 PHF2 coding CI01000306 null 4315624 ~ 4340864 (-)
bowfin (Amia calva) AMCG00017233 phf2,LOC102794927 coding CM030122.1 CM030122.1 51298360 ~ 51327317 (-)