AMCG00004946 (kdm4a,LOC108280529)


Basic Information

Item Value
gene id AMCG00004946
gene name kdm4a,LOC108280529
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030140.1
NCBI id CM030140.1
chromosome length 22460246
location 10727154 ~ 10740253 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00004946
CGCCTGCGCATAGTGGAGTAATGGAGGACGTTTCTTCTTCCTCGGAGTAAAAACCCAAATTTACATGCTTATCCAGAGACGGAAGACGTGCCAAAGCCTCTGAAGATTTGTATCCGCTACGAACAGAAGAACGTCACAAATTGGCAAGAATGGCTTCCGACTCGGGACCCCAGAACCCCAGCAACAGGATCATGACCTTCTACCCCACCAAGGAGGAATTCAAAAACTTCAGCCGCTACATAGCATATATAGAATCTCAAGGAGCGCACAGAGCCGGTCTGGCAAAGGTTGTCCCACCGAAGGACTGGAAGCCTAGAAAATGTTATGATGACATTGATGGCCTGGTAATACCAGCTCCCATCCAGCAGGTCGTGACGGGGCAGTCCGGTCTGTTCACACAATACAACATCCAGAAGAAGCCGATGACCGTGCGCGAGTTCCGCAAGATCGCGAACAGCGACAAgTTCTGTAATCCACGCTATGCAGATTTTGAGGAACTTGAAAGAAAATACTGGAAGAACCTCACCTTTAATCCACCCATTTATGGAGCTGATGTGAATGGCACATTGTATGATAAAGACATCACAGAGTGGAACATCGGTCATCTGAACACCATCCTGGATAcagtggagagggagagcggcATCACCATTGAAGGAGTAAACACCCCATACCTGTACTTCGGCATGTGGAAGACCACATTTGCCTGGCACACCGAAGACATGGATCTATACAGCATTAACTACCTGCACTTTGGGGAACCTAAGTCCTGgtATTGTATCCCTCCAGAACACGGAAAGCGACTGGAACGTCTTGCTAAAGGATTTTTCCCTGGAAGTTCACAGAACTGTGAGGCTTTCCTCAGACACAAAATGACCCTGATCTCTCCATCCATTCTGAAGAAATACGGCATCCCATTTGAAAAGATTACTCAGGAAGCTGGGGAATTCATGGTCACATTCCCCTATGGCTATCATGCTGGGTTCAACCACGGCTTCAATTGTGCCGAGTCCACCAACTTTGCCACTCGGCGTTGGATTGAGTACGGAAAACAAGCGATACTGTGCTCCTGTCGGAAGGACATGGTCAAGATCTCCATGGATGTGTTCGTGCGCAAGTTCCAGCCCGACCGCTACAAGCAGTGGAAGGCAGGCAAGGACAACATGGTCATCGACCACTCTAGACCCACGCCAGAAGCCGCCGAGTTCCtgaaggaggggaaggggggctTCGAGACGTACTCGGACACAGACTGCAATGAAGACGTGCACAgcgaggaggaagaggaggaggtggaggaggagaagaagaagaagagCCTTTCCAAACAGAGAATCGGCACCAAGAGACATCGGGTTTGTCTGGAGGTCCCAGAAGAGGTCCTCACCAAGGAAGAGTTGGTGGACACACGCTATGAAGAAGAGGTGTCCGATAAGAAAGTCAAACTGGCTAATCCTCTAGACCAGCAGCTAGCAGCAGAGTGCAGTGAAAAGCCCAGCCTGCACGATCGTGGGCCTTCTACAGAGAGCGCTGATCCCGCAGAGACTGAGCACACCGACTCCACACCCCACCTCCTGCGTGGGACCTGGGAAGCCCCAGAGGAGGAGCGTGTGGTAGGCGGTCCACCGAGCCCGGTCGTGGCTGGTCCCAGTGGCGATCCCCTTTCCTGTGCCGCTCCCCAGTCCGTCCCGTCCTCTGACCCGGGCAGCCTGGCTCTCCAGAGGACTCTGAGCCCTGCTGAGGCGCTCCAGGTGGTAGAAGAAACTGAAATCAAACACCTGAAAAGCAAACGGCAACCTCTTAGTAAGCTCCCTCGGCACCATCCGCTCATTAAGGACTGCTTCAGTGACGAGGAGCTGCAGGATCAGGGCACTGCGGACGAGGATGCGGTGGATTCGGAGCTGTGGTCGAAGCCCCTTGCCCAGCTGTGGCACAACAAGCCTCATAACCTGCAGGCGGAGCGGGAGTACAACCAGACCATGGGGCAGCAGGCGCCCTACTGCGCCGTCTGTATGCTGTTCCAGACGTACCAGCAGtCTGAGTACAGCAGCAGTAACCAAAGCCCTGAGAAGGAGTCCACCGGGGAGCAGCTCCAGACAAAGCCCCTCATcccagaaatgtgttttaccaCAACGGAGGACAACTCGGAGGTCCATTTCTCTGCCCCATATCTGGAGGAGGACGGCACCAGTTTGCTCATCAGCTGCTCTCAGTGCTGTGTGCGAGTTCACACCAGCTGTTATGGCGTAGCTCCTGAGAAAGTGTCTGACCATTGGAAGTGCGCTCGCTGTGAAGCCAACGCCATGACAGAGAACTGCTGTTTGTGCTCGCTGAGAGGGGGAGCCTTGCAGAGAGCAAACAATGACAAGTGGGTGCATGTCCTGTGTGCAGTAGCCGTGTTGGAAGCCCGGTTTGTGAACATTGCCGAGCGTAGCCCTGTCGATCTCAGTGGGATACCATTGCAAAGGTTCAAGCTGAAATGCTTCTACTGTAAGAAGCGGATGAAGAGGGCCGCAGGGTGCTGTGTCCAGTGCTCGCACGGTCGCTGCCCCACTTCCTTCCACGCCACCTGTGCCCAGGCAGCCGGGGTCCTCATGCAGCCCGACGACTGGCCCTTCGTCGTCTTCATCACCTGCTATCGCCACAAAGGCCCCATCCACACAGAGCGCAATAAGGCATCCATGCGTGAGCTCTCCGTGGGACAGAAGGTGATCTGCAAGCACAAAAACGGACGCTACTACCAGTCGGAGGTGGTGAGGCTGACCAAGGAGACTTTCTACGAGGTCAATTTCGATGATGGCTCTTTCAGCGACAACCTCTTTCCAGAAGACATTGTGAGCCGGGACTGTGTGCAGCTGGGGCCCCCTGGGGACGGGGAGGTGGTGCAGGTGCGGTGGACAGATGGCTTGGTCTATGGAGCCAAGTTTGTGGCTGCACACATCATCCAGATGTATCAGGTAAGGAGGAGCGGCCATGATGAGATTTTGACAGAGAAGGAGGTGAAACAGGAGTCCAAGAGACAGCGGGTGATAAACTCCCGGTACCGGGGCGACTACATTGAGCCCGTGGTCTACAGAGCAATCATGGAGTAA

Function

symbol description
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 X2

GO: NA

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
AMCG00004946 True 3092 mRNA 0.54 21 10727154 10740253

Neighbor

gene id symbol gene type direction distance location
AMCG00004944 NA coding upstream 10954 10676345 ~ 10716200 (+)
AMCG00004943 LOC107743377 coding upstream 63202 10653590 ~ 10663952 (+)
AMCG00004945 ptprf coding upstream 119257 10605647 ~ 10607897 (+)
AMCG00004934 NA coding upstream 610649 10050058 ~ 10116505 (+)
AMCG00004936 NA coding upstream 785915 9938421 ~ 9941239 (+)
AMCG00004941 NA coding downstream 35995 10776248 ~ 10798801 (+)
AMCG00004939 st3gal3b coding downstream 78147 10818400 ~ 10822872 (+)
AMCG00004938 LOC106598945 coding downstream 98733 10838986 ~ 10841454 (+)
AMCG00004940 NA coding downstream 137674 10877927 ~ 10880307 (+)
AMCG00004951 pif1,LOC104945614,LOC107700539 coding downstream 191640 10931893 ~ 10940644 (+)
G144315 glul,gs01,LOC107083392,LOC107732203,LOC106584177,LOC108438877,LOC104941255,LOC108272186,LOC108437688,LOC105011759,LOC107733907,LOC106560331 non-coding upstream 879398 9843429 ~ 9847756 (+)
G144237 NA non-coding upstream 1169679 9554100 ~ 9557475 (+)
G144227 NA non-coding upstream 1226176 9494496 ~ 9500978 (+)
G144218 NA non-coding upstream 1260541 9464141 ~ 9466613 (+)
G144210 NA non-coding upstream 1278621 9447589 ~ 9448533 (+)
G144512 NA non-coding downstream 256129 10996382 ~ 10997606 (+)
G144534 NA non-coding downstream 395504 11135757 ~ 11139343 (+)
G144549 NA non-coding downstream 458060 11198313 ~ 11199835 (+)
G144581 btf3l4,bt3l4,LOC107562065,LOC107655993,LOC104965512,LOC103026176 non-coding downstream 504349 11244602 ~ 11247808 (+)
G144603 nexn non-coding downstream 589024 11329277 ~ 11331419 (+)
AMCG00004935 pbx1b,LOC108443834,LOC108272157,LOC106584178,LOC101069707,LOC105011758,LOC106599262 other upstream 711730 9948410 ~ 10015424 (+)
AMCG00004921 gbg12,gng12,LOC105895117,LOC107555383,LOC107705318 other upstream 976377 9700167 ~ 9750777 (+)
AMCG00004870 rpf1,LOC107745333 other upstream 2993095 7718273 ~ 7734059 (+)
AMCG00004868 samd13 other upstream 3034793 7672816 ~ 7692361 (+)
AMCG00004864 NA other upstream 3103084 7608901 ~ 7624070 (+)
G144677 NA other downstream 922428 11662681 ~ 11663368 (+)
G144940 NA other downstream 2040327 12780580 ~ 12781170 (+)
AMCG00005060 LOC106599426 other downstream 3414902 14155155 ~ 14188329 (+)
AMCG00005105 LOC102220226,LOC108442892 other downstream 4639346 15379599 ~ 15384811 (+)
G145932 NA other downstream 7025004 17765257 ~ 17771525 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_031774 kdm4aa coding NC_007117.7 CM002890.2 3280939 ~ 3319142 (+)
grasscarp (Ctenopharyngodon idella) CI01000024_07672858_07695341 KDM4AB, KDM4A coding CI01000024 null 7672593 ~ 7695825 (-)