kdm4ab (kdm4a,kdm4ab,LOC108280529,LOC107564389,LOC107684932,LOC107700543,LOC107551714,LOC107743373)


Basic Information

Item Value
gene id kdm4ab
gene name kdm4a,kdm4ab,LOC108280529,LOC107564389,LOC107684932,LOC107700543,LOC107551714,LOC107743373
gene type misc
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047615.1
NCBI id CM018561.1
chromosome length 21248730
location 19476112 ~ 19507197 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_034314691.1
tgcgcagtgctgAGCTAATGGAGGTTACGGGTTTCGGCTTTTAAACGTCCGGTGTTGAGCGAAGTGACTGAACATCGCTAAAGCCTCAGGGGGAAATTCCTCGCAGTTTATTCGACATCAGCGGATCGGATCTGCCGGGAGCGAGGATGGCGTCCGACTCGCCGTCTTCCTCCTGTAAAGGGATCATGACGTTTTACCCGACGATGGAGGAGTTTAAGAGCTTCAGCCGCTACGTGGCGTATATGGAGTCTCAGGGAGCGCACAGAGCCGGACTGGCCAAGATCGTCCCTCCGAAGGAGTGGAAGCCCAGACGCTCGTACGACGACATCGACGACTTGTTGATCCCGGCGCCGATCCAGCAGGTGGTGACGGGTCAGTCCGGACTCTTCACACAGTACAACATCCAGAAGAAGCCCATGACCGTGAAGGAGTTCCGCAAGACGGCCAACAGCGACAAGTTCTGCAGCCCTCGCTACGACGACTTCGAAGAGCTCGAAAGGAAGTACTGGAAAAACGTGACCTTCAACCCTCCGATCTACGGAGCCGACGTGAACGGGACGCTCTACGACCCCGACGTCGACGAGTGGAACGTGGGCCGCTTGAACACCATCCTGGACACGGTGGAGAACGACAGCGGCATCACCATCGAGGGGGTGAACACGCCCTACCTGTACTTCGGCATGTGGAAGACCACGTTCGCTTGGCACACGGAGGACATGGACCTCTACAGCATTAACTACCTTCACTTCGGCGAACCGAAGTCATGGTATAGCGTGCCTCCGGAGCACGGGAAGAGACTGGAGCGTCTCGCGAAAGGATTTTTTCCCGGAAGTTCTCAAAACTGCGAAGCTTTTCTCAGACACAAGATGACTCTGATCTCTCCCTCCATTTTGAAGAAATACGGCATCCCTTTTGAAAAGatcaCTCAGGAAGCTGGAGAGTTTATGGTGACGTTCCCGTACGGCTACCACGCCGGATTCAATCACGGATTTAACTGCGCCGAGTCGACCAACTTCGCCACGCAGCGATGGATTGATTACGGAAAGCAGGCCATTCTGTGTTCCTGTCGGAAGGACATGGTGAAGATCTCCATGGACGTGTTTGTGAGGAAGTTCCAGCCCGAGCGCTACGAGTTGTGGCTGGCGGGGAAGGACAACGCTCCCATCGATCACACCAAACCCACTCCAGAGGCGGCGGAATTCCTCGGAGGCAAGAAAGGAAACTTCGGCCATCGAGAGCCTTGTACACAGAACCAGAGCAACGACTCGTctaaaaaaagCGTGGCCAAACAGAGAATCGGTACCAAGCGGCACCGTGTGTGTTTGGAGGTACCGGACGATGTTCTACCGAAGAGCGACGCGCCGTATGACGACTCGGAGTACGGGAAGAAGGGACGCCTGTCTCCACGCGCCGATCCGAGCCGGGACAACACCGagTGCAGCAGTCAGTCGAGTGTAAAATCTCCAGACGGCAGGAAGTGGCTGAAGCTCGGCGATCGTTCCGAGAGGGCGGTCTGCGTTAAGTCGGAGAACGCCGCTGTGACCTCGGGCTCGGCCGCGGCGTGTCCTCAGGCCCAGAGGAAAGGCCACCTGTCCATCGCCACCGTCCCCATGGCCCCTCACTGCCTCTCCGCCCTGCCCTGGACCTCCAGCAAGCCCGGGGTGGCCAGCCTGCTCTTCCACAGGACCCTGAGCCCCTCCGACGCCCTGCAGGTCCACACCTACGCCGCCAAAGCCTCGCTCTGCAAACCTCAACCTCCCAGGGTCCAGGACTTCAGGAAGTCCGAGTCCGAGTCCGAGTCCGAACCCACACCTGAGCTGAAACCCAGCGCAGACACTCCAGAACACAGCGCGGACACACACGAGGAGGAAACGGAAGATGAGAAGGAGAACAAGAGCATGAAGAGGACGCTGCAACCCCTCAGCAATCTGCCTCACCTCCACCCGCTGCTCAGAGAGAGCTCCAGCGATGAAGagctGCAGGAGCAGGTGGAGATCGATGAGGACTCTCAGGAATCGGACCCCTGGGCCCGGCTACTCACGCCCCTCTGGCAGAAACGGATACTGCGCAGCTTTAAAGTCGAGCGGGAATTCAACCGGCGTGTGGGTCTCCAGCCTCCGTACTGCGCCGTGTGCAGCCTCTTCCACACGTACGAGCAGAGCGAGCTGAGAACTCTGATCCAGGGAACGTCTCTATCTCCCGGACAGGAGAAGCTGAGGACGAAGCCTCTGATCCCGGAGATGTGCTTCACGGGAAGTTCGGACGGACAGCTGTCCACTCCGAACCTGGACGAGGACGGCACCAGTCCTCTGGTCAGCTGCACGGTGTGCTCCGTGCGTGTACACACCAGTTGCTACGGAGTGCCTCGAGACAGCAATCTGGACAGTTGGAGGTGTTCACGCTGTGAGGCTAACGCTTTTACTCAGGACTGCTGTTTGTGCTCTTTAAGAGGAGGAGCGCTGCAGAAAGCCAACAATGACAAgtgggtgCATGTATTTTGTGCAGTAGCAGTTTTAGAAGCCAGGTTCGTGAACATCGCGGAGCGCCGGCCGGTTGATCTCAGCGCTATACCTCTACAGAGATTTAAactgaAGTGTCAGTACTGTCGGAAGCAGATGAAGAGGGCGTCTGGTTGCTGCGTTCAGTGTTCCCACGGCCGCTGCTCTTCCTCATTTCACCCTACGTGCGCTCAGGCGGCCGGCGTTCACATGCACCCCGACGACTGGCCCTTCGTCGTCTTCTTCACCTGCTGGAGACACAAAGGAGGCGCGAACATCGAGCGCAACACGGCGTCTCTGCGGGAACTGGTGGAGGGACAGAAAGTCATCTGCAAGCACAAAAACGGACGGTACTACCAGtgcgaggtggtggagctcaccAAAGCAACGTTCTACGAGGTCATCTTCGACGACGGCTCGTTCAGCGACAACCTTTTCCCGGAGGACATAGTGaaCAGAGACTGCGTGCGACTCGGGCCTCCAGCTGAGGGTGACGTGGTGCAGGTGCGCTGGACAGACGGACTGATCTACGGCGCGAAGTTCGTAGCGGCTCACATCATCCCCATGTACCAGTTGGAGTTTGAGGACGAGTCTCAGCTGACGGTCAAGCGGGAGGAAGTGTACTGTCTGGACGAGGAGCTGCCCAAACGCGTAAAGGCCCGACTGTCCGTGGCGTCGGATATGCGCTTTAAAGGAGTCTTCGTGGAGAAGGAAGTCAAGCAGGACACGAAAAGACAGCGCTTCATCAACTCGCGCTACAGAGAAGACTACATCGAACCGGCCATCTACAGAGCCATCATGGAGTGACGTCACGCTTCGCACAGACACGCCTTTATGCCGAACGCTCTGGACTCTGGTTCTGTTTTTAAACGcggctttttgttttgttcttatcGCAAACGGCGACTTCCAAACATGACGGCCACGTCGTGTGTAAAAGCGTTTGTGCAGAttaagttgtttgtttttttttttttccctgaaaccCTGTTCGAGCTCCTTAATCCTCTCTTACCCCATTTTTCCACTGACACGGTGCCGCTGAGGTTAAACTCCAAACCACATCAGTTTACAAGCCAAACTGTTGTATAATCAGACCTGTGAGCCTCTGAATACAACCGTAAACCCTGCGTATGCGCTAGCAAGCCATCATTTTCTACGACATTTGAACTGAGATTTTCccaattttatgcaaattaggtacgACTCAGTAAacaagcgacaaatccaaacgatcgTCTCGAACGATTCCTCGGAACGACCCTGTgctccgacgtttcttcagttccccgctcgCGGCTTTACTTCCACAATTAGTTCCGCTGAAATGGAAGGGAAACTTTAAAATCCTGTCACgtacaacctctcattaaatgtgtatagagacattaggggaaaaaagggaaGTAAGTGAAAGGAAGGAAGTCGGGAAGCGGAGGTCGTTGTGGCCTCTATTGAGTCTACGGTGCTAGTAcacttgctttgctaatctaatctgacaACAGAGTTAGTAACATGGAAAGcgatgttaaatatatttttaaataaaagtggtGTGTATAAATAGTATAGTGCGCTATAGGCTATATGTTTTGATTAATCATCAGAACGAATCAAAAATGAAActagacaggccacgcccacaagagatgACCTACAAGCAACACGAGTGGCTTGTTCCTACTCGCTAGTGACGCTCCGAGTAAACATGAATGAATTCTATCACTCTCGCAGCGACAGTCACACGAAAATCCGTCAGGTTGACAGTGACGTGCGAGATCCGTGTCGTATCGTTAACGTGACGCATTTCACGTGACGCATTGTAAAACTCAAAATGATACTGATCTGATGTTGCAGCCTAATTATAGGCCCGGTGAATTTCTGTTTATAAGTGACACAAGTTCGATAACGAACTTCCAATACACGGGAATGCTTACAATGAATATTTGTAAGGTTTTATCTGAAAGATGGgcgacaaaaaataaaacacatttttgtagtAAGTGTTAGCGGATTTATCCTGAACACATTTTGCTAAACGCTAGCGTTCTTAGCATGATGAGTGTAGCATTGTTGAAATACTTTAACTTGAGCTGTTGTGACGGTGAGGAACTGACGCTCTGTGCGAACAGAATCTCTTGGTTTCCGGTCCGACACCATTTCATGCTGGAAAGGAGCAGATTTCGGTAAAGACCGGAGCAGTTCCAGATCTCACAGCGGCTTTCGAATGTCAGAGGAACGCGAGTGAAGTTTTTGAGAGAACTTTAAGatattaaaacaagaaaaacgaCAAACTTGTCCTCACAAATCTACGCTCGCTATAGTCACTATGCTGTACTGTATTGACTCTGAAAAGTCTGTCTGTCATCCATGCATGCTAATTAACCTGGCTAGTAAAAGATATTCTACCGACAGCCTGATGGCTTCTCGGCTGATGTGCGTAGTGCGGCAGGTGGCGGGATTCGGACGCGCGTGCTGTAGTATTGGGATCGAGTTGCATCGCAGCACCGTGAAGCGCATTACGTTTAAACACACGCTTAATGAATGAACTTTCGTTTTGCAAACATCAGTAAGAAGTAgggtgtgtttcttttttttaattctaatcCGCAAGGAAactatgaatttaaaaaataaataaatgaataaataaataacagcgtGGAAACGGCACGGAAATCTGGGAATCACAGGTGCTCGGGATGCCAGATTGTCCGTCCGTGATGTGACATTTTTGTAGCAATTTTGACGTTTCCGACTATATTCCTGTGAACTTGACCAGCATCCAAACAAAACTCGTAAGAATTCCTTCACTCAAGAAGAAGAATTTGTCCAAATATCTCCTGAGAGGagagggaaataaataaatttaaaaaatcttttagtAAAGACTGGATCGGATCCAGGAGCTAATTCACCGGCGGCTCCTGCACCAGCACCGTGTCTGTGGAAAAGCGTTTTTCCGAAACTCCTTATTGTTTATGGTTGTTATGATATGGATTTCCAGACACAGAGCGAATGCATTAAAAGCAGGATATTTCATCAGCGCTACTTCGCCTAGCaatgaaatcaaaataatgGGAAACGATTAATATCCGAGTTCCCGCTATTCGCAATCTCGGCGCTTGGGTGCCGTATCCCGTTCAAACTGGACACTTGAGTACGTTGTATACGTTTGTTAGCATGGGCCGGGATTTCCTGCTAACGTTCAATAGATAAATCCGCAGGATGAATTATAGCGCGTGTTCACTGTGTAATCTACTGTAAAGATAGAAGTTTTTTTTAGGAAGCTCTAGCTTTATATTCTCCCTCGCTTATTTTCTAGGATCAAATTCTGGGttactgtttaatttatatCTCGGATTAGTTTTGATGGTTGTTCTTTATCTTCTGACAGTTCTCACGATTtggctttgtttaaaaaaaaaaaaaaagaaaaaaagatgtatttatatgttttgATTTTGCGAATCGCGTTTTTGTTCCCTTCCAGTTTTCTACTCTTTTTACTCTGTCGATAGTTAGGAATGAATATTGgcagtttaaagaaaaaaaaaacaaaaacaaaacggaTGCACTTACAGACCGTTTCTCCTCTCCCCCTGAATTCATTGTGTGTATTTAGTAAAACAAGGAAATCTTTCTTGAATAATGTCTCTGTTTAGAGACAATCTGGTTCTAGTAATTGTAAACTCACGACTGCTTCCTTTCTTCATTAAAGCAGCTTGATTTGGA
>XR_004580317.1
tgcgcagtgctgAGCTAATGGAGGTTACGGGTTTCGGCTTTTAAACGTCCGGTGTTGAGCGAAGTGACTGAACATCGCTAAAGCCTCAGGGGGAAATTCCTCGCAGTTTATTCGACATCAGCGGATCGGATCTGCCGGGAGCGAGGATGGCGTCCGACTCGCCGTCTTCCTCCTGTAAAGGGATCATGACGTTTTACCCGACGATGGAGGAGTTTAAGAGCTTCAGCCGCTACGTGGCGTATATGGAGTCTCAGGGAGCGCACAGAGCCGGACTGGCCAAGATCGTCCCTCCGAAGGAGTGGAAGCCCAGACGCTCGTACGACGACATCGACGACTTGTTGATCCCGGCGCCGATCCAGCAGGTGGTGACGGGTCAGTCCGGACTCTTCACACAGTACAACATCCAGAAGAAGCCCATGACCGTGAAGGAGTTCCGCAAGACGGCCAACAGCGACAAGTTCTGCAGCCCTCGCTACGACGACTTCGAAGAGCTCGAAAGGAAGTACTGGAAAAACGTGACCTTCAACCCTCCGATCTACGGAGCCGACGTGAACGGGACGCTCTACGACCCCGACGTCGACGAGTGGAACGTGGGCCGCTTGAACACCATCCTGGACACGGTGGAGAACGACAGCGGCATCACCATCGAGGGGGTGAACACGCCCTACCTGTACTTCGGCATGTGGAAGACCACGTTCGCTTGGCACACGGAGGACATGGACCTCTACAGCATTAACTACCTTCACTTCGGCGAACCGAAGTCATGGTATAGCGTGCCTCCGGAGCACGGGAAGAGACTGGAGCGTCTCGCGAAAGGATTTTTTCCCGGAAGTTCTCAAAACTGCGAAGCTTTTCTCAGACACAAGATGACTCTGATCTCTCCCTCCATTTTGAAGAAATACGGCATCCCTTTTGAAAAGatcaCTCAGGAAGCTGGAGAGTTTATGGTGACGTTCCCGTACGGCTACCACGCCGGATTCAATCACGGATTTAACTGCGCCGAGTCGACCAACTTCGCCACGCAGCGATGGATTGATTACGGAAAGCAGGCCATTCTGTGTTCCTGTCGGAAGGACATGGTGAAGATCTCCATGGACGTGTTTGTGAGGAAGTTCCAGCCCGAGCGCTACGAGTTGTGGCTGGCGGGGAAGGACAACGCTCCCATCGATCACACCAAACCCACTCCAGAGGCGGCGGAATTCCTCGGAGGCAAGAAAGGAAACTTCGGCCATCGAGAGCCTTGTACACAGAACCAGAGCAACGACTCGTctaaaaaaaAGCGTGGCCAAACAGAGAATCGGTACCAAGCGGCACCGTGTGTGTTTGGAGGTACCGGACGATGTTCTACCGAAGAGCGACGCGCCGTATGACGACTCGGAGTACGGGAAGAAGGGACGCCTGTCTCCACGCGCCGATCCGAGCCGGGACAACACCGagTGCAGCAGTCAGTCGAGTGTAAAATCTCCAGACGGCAGGAAGTGGCTGAAGCTCGGCGATCGTTCCGAGAGGGCGGTCTGCGTTAAGTCGGAGAACGCCGCTGTGACCTCGGGCTCGGCCGCGGCGTGTCCTCAGGCC

Function

symbol description
kdm4ab Predicted to enable histone demethylase activity (H3-K36 specific) and histone demethylase activity (H3-K9 specific). Acts upstream of or within blood vessel morphogenesis. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in autistic disorder; breast cancer; carcinoma (multiple); head and neck cancer; and withdrawal disorder. Orthologous to several human genes including KDM4A (lysine demethylase 4A).
kdm4a Enables several functions, including histone demethylase activity; ubiquitin protein ligase binding activity; and zinc ion binding activity. Involved in histone lysine demethylation; negative regulation of cellular metabolic process; and negative regulation of gene expression. Located in cytosol; fibrillar center; and nucleoplasm. Biomarker of several diseases, including alopecia areata; lung cancer; prostate cancer; stomach carcinoma; and urinary bladder cancer.

NR:

description
PREDICTED: lysine-specific demethylase 4A-like isoform X3

GO:

id name namespace
GO:0005634 nucleus cellular_component
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K06709 KDM4, JMJD2, JHDM3; [histone H3]-trimethyl-L-lysine9/36 demethylase

RNA

RNA id representative length rna type GC content exon number start site end site
XM_034314691.1 True 6233 mRNA 0.50 22 19476112 19507197
XR_004580317.1 False 1575 misc_RNA 0.57 11 19498561 19507197

Neighbor

gene id symbol gene type direction distance location
st3gal3b LOC108280530 coding downstream 19697 19393253 ~ 19456415 (-)
LOC113546452 LOC108280527 coding downstream 91795 19364746 ~ 19384317 (-)
pif1 pif1,LOC107551719,LOC104945614,LOC107700539 coding downstream 145243 19316638 ~ 19330869 (-)
nsun4 nsun4 coding downstream 162438 19310150 ~ 19313674 (-)
gadd45aa gadd45a,gadd45aa,LOC108280806,LOC107716939,LOC107743369,LOC107700510,LOC107684937 coding downstream 246516 19226750 ~ 19229596 (-)
ptprfb ptprfb,LOC108280478 coding upstream 5525 19512722 ~ 19668895 (-)
pbx1a pbx1a,LOC103479586,LOC104918287,LOC103143038,LOC107083372,LOC103396165,LOC101069707,LOC108438878,LOC100704482,LOC108280905,LOC106929027,LOC107732204 coding upstream 401912 19909109 ~ 19985267 (-)
tmem275 LOC108280259 coding upstream 598775 20105972 ~ 20110891 (-)
kncn kncn,LOC107700491,LOC107710543 coding upstream 604173 20111370 ~ 20121708 (-)
cdc20 cdc20,LOC107732200,LOC107553255,LOC107700550,LOC107563294,LOC107710546,LOC107677877 coding upstream 643820 20151017 ~ 20157238 (-)
G323303 NA non-coding downstream 84755 19391157 ~ 19391357 (-)
G323298 NA non-coding downstream 89680 19386231 ~ 19386432 (-)
G323092 NA non-coding downstream 160642 19314511 ~ 19315470 (-)
LOC117599938 NA non-coding downstream 200716 19230354 ~ 19275396 (-)
G323088 NA non-coding downstream 255894 19217843 ~ 19220218 (-)
G323327 NA non-coding upstream 94912 19602109 ~ 19602336 (-)
LOC117599987 NA non-coding upstream 303271 19810468 ~ 19814211 (-)
LOC117599996 NA non-coding upstream 308017 19815214 ~ 19817065 (-)
G323706 NA non-coding upstream 614573 20121770 ~ 20180561 (-)
G323709 NA non-coding upstream 622056 20129253 ~ 20185132 (-)
G323011 rpl5,rpl5a,LOC102781853,LOC108436062,LOC101160347,LOC103149531,LOC106904255,LOC105920466,LOC106958298 other downstream 398195 19075000 ~ 19077917 (-)
tceanc2 tceanc2 other downstream 469733 19003239 ~ 19006379 (-)
mrpl37 mrpl37 other downstream 481476 18985173 ~ 18994636 (-)
G322826 NA other downstream 720519 18753772 ~ 18755593 (-)
G322538 NA other downstream 1081289 18394249 ~ 18394823 (-)
G323726 NA other upstream 688097 20195294 ~ 20195672 (-)
LOC113546371 NA other upstream 877004 20384201 ~ 20411806 (-)
LOC113546455 atr,LOC104958464,LOC107677746,LOC107700496,LOC107576458 other upstream 954818 20462015 ~ 20469569 (-)
sh3glb1b sh3glb1,LOC108280317,LOC107700566,LOC107677816,LOC107732941,LOC108414852,LOC107553268,LOC102780267,LOC107382675,LOC103377018 other upstream 1159094 20666291 ~ 20714017 (-)
G323902 NA other upstream 1320829 20828026 ~ 20830104 (-)

Expression


Co-expression Network