kdm1b (kdm1b)


Basic Information

Item Value
gene id kdm1b
gene name kdm1b
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035904.1
NCBI id CM008307.1
chromosome length 27092187
location 5014872 ~ 5046137 (-)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_022671991.1
CACTTCGTCCAGCGAGCTAAAACGGAAGCTGGATTAAATGCCTCGAGACGGCGagcttttctttatttgtattaaaatattaaatatagccGTTTATAAATAATCTCCCACCTCTTTACCCCAGCGGAGCGCTGAGCTGCTCTCAGAGGAGCCGCGGAGCTGTGATTTAGAAGCAGAGGAGGGCGGTGATGTCGGGCGCAGATTATGGTGGGACGGCTCCCGGTAGCCGTTCGAGGGGAAAGAAGAGAGTTGGATCAGCGGTGACGGTGGATCCTTCAAAAGGGGAGGGGAGCTCCGTGCCGTCAGGAAGACAGGCTCCGAATGCTCGGGCTAAAAGGGGCACCAACCCTCCAGTGGCACAGGCCAGTACCAAAAGAAAAGCCCCAGagccagaggaggaggaggaggaccaGATGGAGAAGAAGTTCCGGAAGTGTGAGAAGGCTGGCTGTCCCGCCACATACCCCGTGTGTTTCGCCAGTGCATCAGAAAGGTGTGCAAAAAATGGCTACACGTCCCGCTGGTACCATTTATCCTGTGGAGAGCACTTCTGTAATGAGTGCTTCGACCACTATTACAGAAGTCACAAGGACGGTTATGAGAAGTTCACCTCATGGAAGAGGTTGTGGACGGGAAATGGAAAGAGTGAGCCCAGTCTGAAGGCCTTCATGGCTGACCAGCAGCTCCCTTACTGGGTTCAGTGTACAAAGCCAGACTGTGGGAAATGGAGGCAGCTAActaaagatatccagctaacgGCTTCACTTGCTGCATCGTACCGCTGTGGAATGAAGCTCAACAATGTTAAAACTGAAGGACCGGATCAGTGTTCTCAGCCTGAAGACATGaGAGTGGCTAGTATAGGAGACAGCTGGTGGTACTCCATGTTGATTCTGCCGCCGCTGTTTAAGGAGAGTCCAGCTAGCCCTTTCCTCACTGCTTACTACCCCGACTGCGTTGGCATGAGTCCATCCAGTTCTCATGGTGACCTACGGCCCGAGCAACGCCGCAATATCCAGCCTCAGAttccaGGGTTGTGCCCATACTTCCAGCCGTTCTACCAGCCCAACGAGTGCGGAAAAGCCCTCTGCGTGCGGCCGGACATGATGGAATTGGATGAGCTCTATGAATTCCCAGAATTCTCCAGGGATCCCACCATGTACCTCGCTTTACGTAACCTCATCCTGGCTGCCTGGCACAGAGACTGCAAGGAGGCGTTAACCCCTCAGAAGTGTGCCCCTCATGTGATTGTGCGCGGATTGGTGAGAATACGCTGTGTGCAGGAGTTGGACAGAGTTCTGCATTTCATGACCCGGAAAGGTTTAATCAACACCGGAGCTCTGCTGGCCAAGCAGCCTCTCCTGCCTGAGCCCTACCGTAATAAGAAGGTGTTGGTGGTTGGAGCAGGACCTTCAGGCCTTGCTGCTGCCAGACAGCTGCAGAACTTCGGCATGCAGGTGGTGGTGTTGGAGTCCAGGGATCGAATAGGAGGACGAGTTTGGGACGACAAGTCACTTGGTGTCACTGTGGGACGAGGTGCTCAGATTgttaatggctgtgtgaacaatCCCATCGCTCTGATGTGTGAACAGCTGGGTGTGAAGATGCATAAGTTACGTGATCGATGTGACCTGATCCAGGAGGGTGGCCACATCACTGACCCTGCCATAGACAAGCGCATGGACTTCCACTTTAACGCTATACTGGACGTTGTCTCTGATTGGAGGAAGGACAAGTCGCAGCACATGGATGCTCCTCTTGGGGAGAAGATCCAGGAGGTGTGCAAGACGTTTCTGCAGGAATCAACCATTCAGTTCAGCGAGCTGGAAGAAAAAGTACTTCAGTTCCATCTCAGCAATCTGGAGTATGCCTGCGCCAGCACCCTGGACCAGGTGTCTGCTCAGTCCTGGGATCATAACGAGTTCTTTGCGCAGTTCTCTGGAGACCACACACTTCTGACCGAGGGCTATTCCACTTTGCTGCACAAACTGGCCCAAGGGCTCGACATCCACCTCAACAGCCCGGTGCAGTCTATTGATTACTCAGGAAATCTTGTGGTGGTCACAACCTCAGGTGGAACAAAGTTTACTGCGCAGAAGGTGTTGGTGACTGCTCCTTTAGCTCTTCTGCAGAAGAACATTATCCAGTTCAACCCTTCTCTCCCAGAGAGGAAGCTCAAAGCCATTCACAGCCTGGGAGCAGGCATCATAGAGAAGATCGCTCTGCAGTTCCCTTACAGATTCTGGGACAGTAAAGTGAAGGGTGCAGATTATTTTGGTCATGTTCCCCCGAGTCCAGAGAAGAGAGGGTTGTTCAGCGTGTTTTATGACATGACTCCAAAGGGAGGGCAGTGTGTGCTAATGTCTGTGATAACGGGAGAAGCGGTGGCATTAGTGAAGTATCTGGAGGAGAAAGCAGTGGTTCAGCTCTGCATGAATGTCCTCAGGGAACTCTTCAAGGAACAGGAGGTTCCAGATCCGTTAAAGTTCTTCATGACTCATTGGAGTAAAGACGTGTGGTCTCAGATGTCCTACAGCTTTGTGAAGACTGGAGGCAGTGGAGAGGCCTATGACATCATCGCTGAAGATGTGCAGGGCAAAGTTTTCTTCGCCGGCGAGGCCACAAACCGGCACTTTCCTCAGACAGTAACGGGTGCTTATTTGAGCGGAGTACGGGAAGCCAGTAAAATCGCAGCACTGTAAGGCTCTGGGCAGGTGACAGACTGATGGATGGACGAACGAATGGATTGGAATGTCAAGTCGGGGCTTCcatgacatgttggatcatgTGTTAAAAACCACCTATCAGGAATTAAAGACACCTAAGCTTGTGTTGTTTGGGTACTGCATGTTCGTATTGTTAGCTGGTGAAGATGTAGAAGATATAGAAGGATAAATCCAAACTAGGTTTTTGAGCTGTCTGATACTGTGTTAACCAGGACCTCCCACTGTAGTATGATGGATTCTGTTATTgctatctgaaaaaaaatatgtacctCCATTTATGTTGATGTTAGATGTTTAGCTTCATGCACCTTTTGAAGATGTCATTCACAGGTTCTCCACATTTCTTAATGAAAAGACcagtagaaatgctccaaaatgaattAGCATAACatcggaaaaaaaaataataataataattcactaATAATAACTTGTGTTGAAAATGTAAAGCTGCCATTTTGGAGAGAGAGTTTTCTTTGGACAGCGATGCTATGATGTAAGGATGGTTCACTCATTCATGATTCTTTAGTGaattatgtgtgtatgtgttttctctactgtgttctctttcttttggTCCCCTAAAGGTCCTAGAAGATTTTGCTTTGGTCCACACTGGGGAGCGTTGTCCTAAGAGAAAAGTGTCAGGACAAGTCTTAGTATGAACGTTAAGTATGATGATGTTCCTCTGAAGGCTAAAACGTATTGTTGTTCATCCCTCACCGTGACTTTGAGGGAAACTTTGGTATGAATTATGAAAGCACTCTGCATGGATTTGATTTATTAACTTAAAGCACTGTAGTGATGGTGGGATCCGCATTAAAGTATCATTCTGTATTCAGAGTGCAAGAAGACAAGTTCAGTAATTTACTCTACCTGCTCTAATCATGaggacatttttttctttatggtgaaaaaaaacataaaaaacaaatgtaatatatgcaTACTGTAAATTATACAAGTATTTGTCTTACattgactttactttttttcctacataaattatctgaacaaaacaaaaa

Function

symbol description
kdm1b Enables several functions, including FAD binding activity; histone demethylase activity (H3-K4 specific); and zinc ion binding activity. Involved in histone H3-K4 demethylation. Located in nucleoplasm. Part of nucleosome. Biomarker of retinoblastoma.

NR:

description
PREDICTED: LOW QUALITY PROTEIN: lysine-specific histone demethylase 1B

GO:

id name namespace
GO:0055114 oxidation-reduction process biological_process
GO:0016491 oxidoreductase activity molecular_function
GO:0003677 DNA binding molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K19413 KDM1B, AOF1, LSD2; lysine-specific histone demethylase 1B

RNA

RNA id representative length rna type GC content exon number start site end site
XM_022671991.1 True 3751 mRNA 0.48 21 5014872 5046137

Neighbor

gene id symbol gene type direction distance location
LOC103041488 NA coding downstream 1005 4958105 ~ 5013867 (-)
LOC111193075 NA coding downstream 39247 4961589 ~ 4975625 (-)
LOC103026470 LOC108435611 coding downstream 551900 4447172 ~ 4462972 (-)
LOC103042532 LOC108442489 coding downstream 1104343 3862118 ~ 3910529 (-)
LOC103024174 LOC108442487 coding downstream 1505876 3461237 ~ 3508996 (-)
nudcd2 nudcd2 coding upstream 84465 5130602 ~ 5137613 (-)
LOC103044536 LOC108435599,LOC564855,LOC107684857,LOC103391210,LOC103359223 coding upstream 365579 5411716 ~ 5422882 (-)
gstp1 gstp1 coding upstream 453878 5500015 ~ 5511729 (-)
trpc3 trpc7,LOC108435597,LOC107678610 coding upstream 485734 5531871 ~ 5596025 (-)
LOC103036182 cxxc5b,LOC103036182,LOC108444528,LOC107758529,LOC108274782,LOC107589097 coding upstream 724650 5770787 ~ 5800724 (-)
G71325 NA non-coding downstream 21743 4990921 ~ 4993129 (-)
G71324 NA non-coding downstream 28220 4985007 ~ 4986652 (-)
G71319 NA non-coding downstream 34773 4956296 ~ 4980099 (-)
G71316 NA non-coding downstream 59999 4943303 ~ 4954873 (-)
G71315 NA non-coding downstream 73092 4940908 ~ 4941780 (-)
G71338 sfxn1,LOC108275306,LOC108240619,LOC106517750 non-coding upstream 22762 5068899 ~ 5075605 (-)
G71361 NA non-coding upstream 110481 5156618 ~ 5230814 (-)
G71396 NA non-coding upstream 277207 5323344 ~ 5323642 (-)
G71464 gdf9 non-coding upstream 444226 5490363 ~ 5491941 (-)
G71472 NA non-coding upstream 481522 5527659 ~ 5527874 (-)
trnaw-cca_42 NA other downstream 90801 4924000 ~ 4924071 (-)
G71235 NA other downstream 130384 4882170 ~ 4884488 (-)
G71175 NA other downstream 601861 4411948 ~ 4413011 (-)
LOC103042226 LOC108274609,LOC107701883,LOC100536156,LOC107747745,LOC107574915,LOC108442488 other downstream 1166248 3736626 ~ 3848624 (-)
LOC103023864 NA other downstream 1311121 3575561 ~ 3703751 (-)
G71458 atp7a,LOC107554685,LOC107684827,LOC107745084,LOC107559604 other upstream 425529 5471666 ~ 5476375 (-)
LOC103035656 LOC103035656,LOC108414340,LOC108274783 other upstream 783484 5829621 ~ 5841707 (-)
G71771 NA other upstream 1731102 6777239 ~ 6824756 (-)
G71826 NA other upstream 2010973 7057110 ~ 7057643 (-)
G71862 NA other upstream 2263638 7309775 ~ 7312926 (-)

Expression


Co-expression Network