AMCG00021802 (kdm1b)


Basic Information

Item Value
gene id AMCG00021802
gene name kdm1b
gene type misc
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030130.1
NCBI id CM030130.1
chromosome length 39556810
location 30449957 ~ 30468920 (+)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00021802
ATGCAGGCAAAAAGGAAAGCGACAGAAACGGAGGAAGATGAAGACCAGTCGGAGAAGAAGTACAGGAAGTGTGAGAAGGCGGGGTGCACGGCCACATACCCAGTGTGCTTTGCCAGTGCCTCTGAAAGGTGTGCAAAAAATGGCTACACCTCTCGATGGTACCATTTATCTTGTGGAGAACATTTCTGCAATGAATGCTTTGATCACTATTACAGAAGTCATAAAGATGGATATGAGAAGTATGCCAGCTGGAAGAGAATCTGGACTGGAAATGGGAAAAGTGAGCCCAGTGTTAAAGCTTTCATGGCTGACCAGCAACTACCATATTGGGTGCAGTGTATCAAGCCGGGTTGTGGAAAATGGCGGCAGTTGACGAAGGACATTCAGCTCACCTCTTCGCTGGCAGCAACATACCGCTGTGGGATGAAGACTAATAATGTGAAGAGTGAAGGTCCAGACCAGTGTTCCCAGCCAGAAGACATGAGGGTGGCAGAAGTGATTGACAGCTGGTGGCACTCCATGCTTATCCTGCCTCCGCTGCTGAAGGACAGTCCAGCCAACCCTTTTCTCACAGCCTACTACCCGGACTGCGTGGGCATGAGCCCCTCTGGTTCACCCTGTACCCACTCCCTCCACGACATGAAGTCCGAGCACTGCAGAGCCGTACAGCCCCAGAGATTATGCCCATACTTCCAGCCTTTCTACCAGCCCAACGAGTGTGGGAAGGCCCTGTGTGTGCGGCCCGACATGATGGAGCTGGACGAGTTGTATGAGTTTCCTGAGTATTCCCGCGACCCCACCATGTACCTGGCGCTGCGCAACCTCATCCTGGCCTCTTGGTACAGGGACTGCAAGGAGGTCCTCACCACTCAGAAGTGTGCTCCTTACCTCATTGTAAGGGGGCTGGTGCGGGTGCGCTGTGTGCAGGAGATGGACAGAGTCCTCCACTTCATGACCCGCAAGGGCTTAATCAACATGGGCGTCCTGTCCAAGAAAGTCATTGTCATTGGCGCAGGAATATCAGGCTTGGCTGCTGCCTGTCAGCTTCAAAATTTTGGCATGCAGGTGGTCATCCTGGAGGTGAGGGACCGGATCGGTGGCCGAGTGTGGGACGACAAGTACCTGGGCCTGACCGTGGGGAGAGGAGGCCAGATTGTGACCGGCTGCGTTAACAACCCCATTGCCCTAATGTGTGAGCAACTGGGCATCAAGTTGCACAAGCTGGGAGACCGGTGCGACCTGATTCAGGAAGGGGGCCGGGGGACAGACCCATCAATTGACAAGCGTATGGACTTCCACTTCAACGCCATCCTGGACGTGGTGGCTGAGTGGAGGAAAGACAAAACCCAGCACCAGGACGTCCCCCTCGGAGAGAAAGTCCAAGAAGTCTACAAAGCCTTTATTCATGAGTCGGGAATACAGTTCAGTGAACTGGAGGAGAAGGTGCTTCAGTTTCACCTCAGTAACTTGGAGTACGCTTGTGGCAGCAATTTAGGACAGGTGTCCGCACGCTCCTGGGATCACAATGAGTTTTTCGCTCAGTTTACCGGAGACCATACTCTGTTAACGCAGGGATTCTCCTCCATCACAAACAAGCTGGCTGAGGGGCTTGATATCCGGCTCAAAACTTCGGTTCAGGCTATTGACTACTCAGGGGAAGAAGTTAAGGTCACTTCATCCAATGGATCCCAGTGGACAGCACAGAAGGTGTTGGTAACGGTCCCATTGGCTTTGCTTCAGAAGAATGTTATACAGTTTAACCCATCCCTACCAGAGAGGAAGCTTAAGGCTATCCACAGTTTGGGCCTAGGGGTTATTGAGAAGATTGCCTTACAGTTCCCGTACAGATTCTGGGATAGCAAAATCCAAGGTGCTGACTTCTTTGGCCACGTCCCGTCCACCTCAGACAAGCGAGGACTGTTCGGCGTCTTTTATGACATGGATCCCCAGGGGAAACACAGTGTTCTCATGTCAGTTGTCTCTGGAGATGCAGTTACAATTATCAAAGATTTGGATGACAAGCAAGTGGCTAACATGTGCATGAACACCCTCAGGGAACTGTTTAAAGAGCAGGAAGTCCCAGAGCCAGTGAAATATTTTGTCACGCGCTGGAGTAAAGACATGTGGTCACAGATGGCCTACAGCTTTGTGAAAACCGGAGGGAGTGGAGAAGCATATGACATTATAGCAGAGGAAGTGCAAGGCAAGGTCTTCTTTGCTGGGGAGGCTACCAACAGACACTTCCCTCAAACTGTCACAGGAGCCTACCTGAGTGGCGTGCGAGAAGCAAGGATCGCTGTCTTTCTCAAATGTGAACCCCCTGAACTGGCGAAGGTTCTTCTTTAA
>TU110466
TGAGCTAAAAGCATAATTCAGCAAGAATCAGTTTAGACAAAGGATTGACTAAATTAAGatgttttaaagtaaatgaGAGGGGCAAGACATCAGGACAAAGCTTACCTTCCCTGAAGTACTTGGATTCAACAAAAATGTTAGGATTCGGTCTATAATATCATCATGCCTTCCAGACTTTTCCAGATCAAGGATACCACAGATATTCTTCAATACAACAATTGTGTACCTTTTAgcatttcttgtttctttttgtagGGATCGCTGTCTTTCTCAAATGTGAACCCCCTGAACTGGCGAAGGTTCTTCTTTAAAGTGGCCACCTAAAGAGAAGAATACTTTTCTAAACAtctcaacagaaaaacaatacaataccacTAAACACTTGCTCGGGAAAGTAGCATTTTTGTGTGCAATAGCCACCCGTCCTACCCCCTCCACTCTGACAGCAAACATTtctataaacctttttttttttttttcgaaggGTGTGAAAGTCCAGCATATCATTCTAGTATTGCTTTATAgaaataatattcacaaattgtacacacacacacacacacaaacatatacataaaatcATGGATGCCTTACAGCGCCCGGACGATTATACAGAAGTTTGTGAAGAGGTTTTAACTCGGGAGATTTCATCTTGGACAGGAAATAATTTACTCTCTCAATTTCTCCCAGTTTTTGTCCTATACCTGAAAGGGCCaaggaaaaattaaatacatgttaggAGCACTTTTAactgggttttttgtttttttaacaaggaAGTCTGGGTACCTTCTAAATACTCACCCAGCAGACAAAACTGATGTTCCAACTCAACCCTTTACCCAATATGGTCAAGGAAGTGCGTGTATAGATTAGTAAAAGATTTGAATACTGAAACCAAAGTACAATAACTCAAGCACTTTATTTACAAGTATGTTATGTCTTGACAAGTTagctatatgtattttttaaacaatacaaactacTCTGAGgtgtaaaaaaaatgcagtcCTCCTGCTGTAGGTGTGACAAGCCTAATGACTACACATCATATTCAGTACTTCATTAAGGCAGTTAGTTGTtttatattagcatttaaaaGCATGACTTGTGGCAATATGCTGAGCATATGTAGGAAACATTTTTCTGGTATCACAGATGAATACCATTTACCATTTAGTTACCAAGCAGGTAAATGTTCACAACTGCCTCCCTTCCCTACTTTAAACATAGTAGATAAAGTTATTCTTGCCAAAAGGCAATAAATGCAAAGCATAATGgagatttttaatttatatattttttcgattataaaaaaaaattgcatagCAATCGCCTACTTATTGTTCAAACACAATCTGACATCTTCACAGATGTTTCATctaagcttaaaaaaaagaaaaactgtcctCGAATTTAATACATGAAGAAACACCACACTAACTCACACTCGTAAGTATCCATTTTCATTGCACTTTAATGTACAATCAATGGAGTTATGATGATGTCCCATTTGTgcaaaaaacattgaatagtTGGAAAATAGTCTCAACAACTAATTGCTTCACTTTTCTTGAAATGCCTCCATATTATTGAGAAGCAAAAatctaatattaaaattaagtcaTTAAAGTCTTAAAGAACAAATACAGATTGGATACTTTACCCGATGGAACAGTCAGACGTTCCTTTGGTTTACTGATCTGGAAATCTAGTCTCTCCAccttctttttttgtctttttccttcCACTATAAGGGTTTTCA

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: lysine-specific histone demethylase 1B isoform X1

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
AMCG00021802 True 2346 mRNA 0.52 21 30449957 30467466
TU110466 False 1765 lncRNA 0.35 2 30466903 30468920

Neighbor

gene id symbol gene type direction distance location
AMCG00021804 NA coding upstream 17842 30408616 ~ 30432115 (+)
AMCG00021798 NA coding upstream 68579 30379747 ~ 30381378 (+)
AMCG00021800 NA coding upstream 74758 30347824 ~ 30375199 (+)
AMCG00021799 si:dkeyp-120h9.1,LOC106570559,LOC105012503 coding upstream 150044 30291241 ~ 30299913 (+)
AMCG00021795 hey1,LOC104947062,LOC107584259,LOC102780967 coding upstream 195604 30250083 ~ 30254353 (+)
AMCG00021810 kcnv1 coding downstream 13656 30482576 ~ 30492325 (+)
AMCG00021812 dpy19l4 coding downstream 58112 30527032 ~ 30561697 (+)
AMCG00021813 NA coding downstream 100282 30569202 ~ 30573271 (+)
AMCG00021811 NA coding downstream 148999 30617919 ~ 30678407 (+)
AMCG00021815 ints8,LOC107563206 coding downstream 210916 30679836 ~ 30699364 (+)
G88485 NA non-coding upstream 191760 30256024 ~ 30258197 (+)
G88452 NA non-coding upstream 230461 30142195 ~ 30219496 (+)
G88454 NA non-coding upstream 310673 30137538 ~ 30139284 (+)
G88450 NA non-coding upstream 401069 30047128 ~ 30048888 (+)
G88440 NA non-coding upstream 471398 29975041 ~ 29978559 (+)
G88609 NA non-coding downstream 258364 30727284 ~ 30730868 (+)
G88655 NA non-coding downstream 578883 31047803 ~ 31048529 (+)
G88666 NA non-coding downstream 661427 31130347 ~ 31132235 (+)
G88677 LOC101154678 non-coding downstream 745389 31214309 ~ 31214669 (+)
G88741 NA non-coding downstream 1389915 31858835 ~ 31859037 (+)
AMCG00021803 clg22h6orf62,clg10h6orf62,c24h6orf62,LOC106515831,LOC101464686,LOC108240366,LOC104924567,LOC102228185,LOC103135136 other upstream 42185 30267402 ~ 30407772 (+)
AMCG00021779 LOC108438266,LOC105891906 other upstream 1064632 29378575 ~ 29385325 (+)
AMCG00021772 NA other upstream 1174610 29264827 ~ 29275347 (+)
G88276 NA other upstream 1384618 29060887 ~ 29065339 (+)
G88238 NA other upstream 1671224 28778315 ~ 28778733 (+)
AMCG00021881 LOC107748698,LOC102792383,LOC101481807,LOC108256925,LOC106919167,LOC108434168 other downstream 4457633 34926553 ~ 35077090 (+)
G89142 NA other downstream 4742213 35211133 ~ 35263537 (+)
G89299 NA other downstream 5495651 35964571 ~ 35967384 (+)
AMCG00021900 NA other downstream 6181312 36650232 ~ 36659244 (+)
G89578 NA other downstream 7652337 38121257 ~ 38151049 (+)

Expression


Co-expression Network