XLOC_007681 (loxl3a)


Basic Information

Item Value
gene id XLOC_007681
gene name loxl3a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007125.7
NCBI id CM002898.2
chromosome length 52660232
location 5866894 ~ 5916580 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00015062
ATGCTGAGAAGTGAACTTAGGGATATGGTGGTTGCAATGGTGCTTTGGGGCATCTTGTTGCCCTTTTGTCTCAGCCAGACCACCTCACCATCTCAGGATGGGAAAATAAAGTTTCGTCTGGCCGGATACCCTCGCAAGCACAATGAAGGGAGGATAGAGGTGTTTTACAATCGAGAGTGGGGCACTATCTGTGACGACGACTTCACACTGGCCAACGCTCATGTGCTGTGTCGCCAACTAGGGTTCGTGGAGGCACTAAGCTGGTCCCACAGTGCCAAATATGGACCGGGCAGCGGTAAAATCTGGCTGGATAATGTGATTTGTGGAGGAAGTGAAAACAGCATTGAGAAATGTGTGTCCCGTGGCTGGGGGAACAGTGACTGCACGCACCAGGAAGATGCAGGGGTCATCTGCAAAGATGAGAGACTTCCAGGCTTTGCAGAGTCTAACATCATCGAGATGCAGGTGGATGAAAAGCGTATGGAGAAGATTCGTCTGCGCCCGCTTAAAGGTGCTCATGCCGGTCGTTTGCCTGTGACTGAGGGAGTGGTGGAGGTGAAGTTTAAGGAAGGATGGGGCCACATCTGCAACACCGGCTGGACCATCAAGAACTCTCGTGTGGTGTGTGGCATGATGGGATTCCCTTCGCAGAGATCTGTGGGAAAGAAACCGAACAGtcTGAAGAGCGCTTACCGTATCCATTCAGTGACCTGCTCAGGGAACGAGGCTCATCTTTCTGCATGCACGATGGAGTTCAGCAGGGCCAACTCTAGCGCCCCCTGTCCTGGTGGAGGAGCTGCTGTAGTCAGCTGTGTGCCCGGGCTGCAGTTCACACAGGGTAGAGTACGCAAAGCCAAGCTCAATCCAGTGCCTCAGATGCGGCTGAAGGGTGGTGCAAGGGCAGGAGAGGGCCGTGTGGAGGTCCTGAAGGGCAGCGAGTGGGGTACAGTGTGTGACGACCACTGGAACCTGCAGTCTGCCAGTGTGGTGTGCAGAGAGCTGGGCTTCGGTACTGCTAAAGAGGCTCTGACCGGAGCACGAATGGGCCAGGGTATGGGTCCCATCTACATGAATGAGGTCCAGTGTGGTGGGGATGAGAAGAGTCTGTGGGACTGTCCTCATCAGAGTATCACTGCTGAAGACTGCAAACACACGGAGGACGCCTCTGTAATCTGCAACATTCCCTACATGGGCTTCGAGAAACTGATGCGGCTGACTGGGGGTCGGACGCGGTTGGAGGGGAGGGTGGAGCTGCTGCTTCCTGCAGGCGGTGGGGTGAGGGACTGGGGTTTGATCTGTGGGGACGGATGGACGTCTCGGGAGGCCATGGTAGTGTGCAGACAGCTGGGGTTGGGACATGCCAGCAGTGGCCTGAGAGAAACATGGTACTGGGACAGCAGTAATGTGACGGAGATGGTGATGAGTGGAGTCAAGTGTAAGGGAGATGAGATGACCTTAACCGACTGTCAGCATCATTCTGTCGTCAGCTGCAAAAGAGCTGGAGCGCAGTTTTCCGCTGGCGTCATTTGCTCGGACATGGCTTCGGATCTAGTGCTGAATGCTCCATTGGTGGAGCAGACTGTCTACATTGAGGACCGACCCCTTCACTTGCTGTACTGTGCAGCAGAGGAAAACTGCCTCGCCAAATCAGCTGCTCAAGCCAGCTGGCCATATGGCCATCGGCGCCTGCTACGCTTCTCCTCCGAGATACACAACATCGGCAAGGCTGACTTCCGGCCACGACTCGGCCGCCATTCCTGGGTGTGGCATGAATGTCATAGGCACTATCATAGTATGGATATCTTCACCTATTATGACCTGCTGTCTCTAAACGGGACCAAAGTGGCAGACGGACATAAAGCGAGCTTCTGTCTGGAGGACACAGAGTGCCATGAGGGTGTTTCAAAGCGCTACGAATGTGCTAACTTCGGAGAGCAGGGCATCACAGTGGGCTGCTGGGACTTGTACAGACATGATATTGACTGCCAGTGGATTGACATCACGGACGTTTCGCCAGGAAACTACATTCTGCAGGTCATAATAAATCCCAACTTTGAGGTCGCTGAGAGCGACTTCACCAACAACGCCATGCGGTGCAACTGCAAATACGACGGCCATCGTGTCTGGTTGCATAAATGTCATCTCGGTGATTCTTTCAGTGAGGAGGCCGAGAAAGAGTTTGAACATTATCCCGGGCAGCTCAACAACAAGATCTCATAA
>TCONS_00015064
CCCGCAGccaactctctctctttctccaaaGACATCAAAACTATCCTGTGATTTCTCCTGATGCTCTGAACTTCCACTTACTGATCAAACAGGGATCACCTCTAAGCTAAACCCAAACCACTTTACTTATATGACAATCTTCTAGATTCAGCCATGCTGAGAAGTGAACTTAGGGATATGGTGGTTGCAATGGTGCTTTGGGGCATCTTGTTGCCCTTTTGTCTCAGCCAGACCACCTCACCATCTCAGGATGGGAAAATAAAGTTTCGTCTGGCCGGATACCCTCGCAAGCACAATGAAGGGAGGATAGAGGTGTTTTACAATCGAGAGTGGGGCACTATCTGTGACGACGACTTCACACTGGCCAACGCTCATGTGCTGTGTCGCCAACTAGGGTTCGTGGAGGCACTAAGCTGGTCCCACAGTGCCAAATATGGACCGGGCAGCGGTAAAATCTGGCTGGATAATGTGATTTGTGGAGGAAGTGAAAACAGCATTGAGAAATGTGTGTCCCGTGGCTGGGGGAACAGTGACTGCACGCACCAGGAAGATGCAGGGGTCATCTGCAAAGATGAGAGACTTCCAGGCTTTGCAGAGTCTAACATCATCGAGATGCAGGTGGATGAAAAGCGTATGGAGAAGATTCGTCTGCGCCCGCTTAAAGGTGCTCATGCCGGTCGTTTGCCTGTGACTGAGGGAGTGGTGGAGGTGAAGTTTAAGGAAGGATGGGGCCACATCTGCAACACCGGCTGGACCATCAAGAACTCTCGTGTGGTGTGTGGCATGATGGGATTCCCTTCGCAGAGATCTGTGGGAAAGAAACCGAACAGtcTGAAGAGCGCTTACCGTATCCATTCAGTGACCTGCTCAGGGAACGAGGCTCATCTTTCTGCATGCACGATGGAGTTCAGCAGGGCCAACTCTAGCGCCCCCTGTCCTGGTGGAGGAGCTGCTGTAGTCAGCTGTGTGCCCGGGCTGCAGTTCACACAGGGTAGAGTACGCAAAGCCAAGCTCAATCCAGTGCCTCAGATGCGGCTGAAGGGTGGTGCAAGGGCAGGAGAGGGCCGTGTGGAGGTCCTGAAGGGCAGCGAGTGGGGTACAGTGTGTGACGACCACTGGAACCTGCAGTCTGCCAGTGTGGTGTGCAGAGAGCTGGGCTTCGGTACTGCTAAAGAGGCTCTGACCGGAGCACGAATGGGCCAGGGTATGGGTCCCATCTACATGAATGAGGTCCAGTGTGGTGGGGATGAGAAGAGTCTGTGGGACTGTCCTCATCAGAGTATCACTGCTGAAGACTGCAAACACACGGAGGACGCCTCTGTAATCTGCAACATTCCCTACATGGGCTTCGAGAAACTGATGCGGCTGACTGGGGGTCGGACGCGGTTGGAGGGGAGGGTGGAGCTGCTGCTTCCTGCAGGCGGTGGGGTGAGGGACTGGGGTTTGATCTGTGGGGACGGATGGACGTCTCGGGAGGCCATGGTAGTGTGCAGACAGCTGGGGTTGGGACATGCCAGCAGTGGCCTGAGAATCCGTATGGTAGGGGGAAGGACGGATCACGAGGGTCGCTTGGAGGTTCAGATCAGTTCCAGATGGGGAACTATATGCAGCGACAATTGGACCACAAGAGAAGCCATGGTGGCATGCAGACAGTTAGGCCTCAAATACTGCCTGCATGCTATTACTGAAACATGGTACTGGGACAGCAGTAATGTGACGGAGATGGTGATGAGTGGAGTCAAGTGTAAGGGAGATGAGATGACCTTAACCGACTGTCAGCATCATTCTGTCGTCAGCTGCAAAAGAGCTGGAGCGCAGTTTTCCGCTGGCGTCATTTGCTCGGACATGGCTTCGGATCTAGTGCTGAATGCTCCATTGGTGGAGCAGACTGTCTACATTGAGGACCGACCCCTTCACTTGCTGTACTGTGCAGCAGAGGAAAACTGCCTCGCCAAATCAGCTGCTCAAGCCAGCTGGCCATATGGCCATCGGCGCCTGCTACGCTTCTCCTCCGAGATACACAACATCGGCAAGGCTGACTTCCGGCCACGACTCGGCCGCCATTCCTGGGTGTGGCATGAATGTCATAGGCACTATCATAGTATGGATATCTTCACCTATTATGACCTGCTGTCTCTAAACGGGACCAAAGTGGCAGACGGACATAAAGCGAGCTTCTGTCTGGAGGACACAGAGTGCCATGAGGGTGTTTCAAAGCGCTACGAATGTGCTAACTTCGGAGAGCAGGGCATCACAGTGGGCTGCTGGGACTTGTACAGACATGATATTGACTGCCAGTGGATTGACATCACGGACGTTTCGCCAGGAAACTACATTCTGCAGGTCATAATAAATCCCAACTTTGAGGTCGCTGAGAGCGACTTCACCAACAACGCCATGCGGTGCAACTGCAAATACGACGGCCATCGTGTCTGGTTGCATAAATGTCATCTCGGTGATTCTTTCAGTGAGGAGGCCGAGAAAGAGTTTGAACATTATCCCGGGCAGCTCAACAACAAGATCTCATAA
>TCONS_00015063
CCCGCAGccaactctctctctttctccaaaGACATCAAAACTATCCTGTGATTTCTCCTGATGCTCTGAACTTCCACTTACTGATCAAACAGGGATCACCTCTAAGCTAAACCCAAACCACTTTACTTATATGACAATCTTCTAGATTCAGCCATGCTGAGAAGTGAACTTAGGGATATGGTGGTTGCAATGGTGCTTTGGGGCATCTTGTTGCCCTTTTGTCTCAGCCAGACCACCTCACCATCTCAGGATGGGAAAATAAAGTTTCGTCTGGCCGGATACCCTCGCAAGCACAATGAAGGGAGGATAGAGGTGTTTTACAATCGAGAGTGGGGCACTATCTGTGACGACGACTTCACACTGGCCAACGCTCATGTGCTGTGTCGCCAACTAGGGTTCGTGGAGGCACTAAGCTGGTCCCACAGTGCCAAATATGGACCGGGCAGCGGTAAAATCTGGCTGGATAATGTGATTTGTGGAGGAAGTGAAAACAGCATTGAGAAATGTGTGTCCCGTGGCTGGGGGAACAGTGACTGCACGCACCAGGAAGATGCAGGGGTCATCTGCAAAGATGAGAGACTTCCAGGCTTTGCAGAGTCTAACATCATCGAGATGCAGGTGGATGAAAAGCGTATGGAGAAGATTCGTCTGCGCCCGCTTAAAGGTGCTCATGCCGGTCGTTTGCCTGTGACTGAGGGAGTGGTGGAGGTGAAGTTTAAGGAAGGATGGGGCCACATCTGCAACACCGGCTGGACCATCAAGAACTCTCGTGTGGTGTGTGGCATGATGGGATTCCCTTCGCAGAGATCTGTGGGAAAGAAACCGAACAGtcTGAAGAGCGCTTACCGTATCCATTCAGTGACCTGCTCAGGGAACGAGGCTCATCTTTCTGCATGCACGATGGAGTTCAGCAGGGCCAACTCTAGCGCCCCCTGTCCTGGTGGAGGAGCTGCTGTAGTCAGCTGTGTGCCCGGGCTGCAGTTCACACAGGGTAGAGTACGCAAAGCCAAGCTCAATCCAGTGCCTCAGATGCGGCTGAAGGGTGGTGCAAGGGCAGGAGAGGGCCGTGTGGAGGTCCTGAAGGGCAGCGAGTGGGGTACAGTGTGTGACGACCACTGGAACCTGCAGTCTGCCAGTGTGGTGTGCAGAGAGCTGGGCTTCGGTACTGCTAAAGAGGCTCTGACCGGAGCACGAATGGGCCAGGGTATGGGTCCCATCTACATGAATGAGGTCCAGTGTGGTGGGGATGAGAAGAGTCTGTGGGACTGTCCTCATCAGAGTATCACTGCTGAAGACTGCAAACACACGGAGGACGCCTCTGTAATCTGCAACATTCCCTACATGGGCTTCGAGAAACTGATGCGGCTGACTGGGGGTCGGACGCGGTTGGAGGGGAGGGTGGAGCTGCTGCTTCCTGCAGGCGGTGGGGTGAGGGACTGGGGTTTGATCTGTGGGGACGGATGGACGTCTCGGGAGGCCATGGTAGTGTGCAGACAGCTGGGGTTGGGACATGCCAGCAGTGGCCTGAGAGAAACATGGTACTGGGACAGCAGTAATGTGACGGAGATGGTGATGAGTGGAGTCAAGTGTAAGGGAGATGAGATGACCTTAACCGACTGTCAGCATCATTCTGTCGTCAGCTGCAAAAGAGCTGGAGCGCAGTTTTCCGCTGGCGTCATTTGCTCGGACATGGCTTCGGATCTAGTGCTGAATGCTCCATTGGTGGAGCAGACTGTCTACATTGAGGACCGACCCCTTCACTTGCTGTACTGTGCAGCAGAGGAAAACTGCCTCGCCAAATCAGCTGCTCAAGCCAGCTGGCCATATGGCCATCGGCGCCTGCTACGCTTCTCCTCCGAGATACACAACATCGGCAAGGCTGACTTCCGGCCACGACTCGGCCGCCATTCCTGGGTGTGGCATGAATGTCATAGGCACTATCATAGTATGGATATCTTCACCTATTATGACCTGCTGTCTCTAAACGGGACCAAAGTGGCAGACGGACATAAAGCGAGCTTCTGTCTGGAGGACACAGAGTGCCATGAGGGTGTTTCAAAGCGCTACGAATGTGCTAACTTCGGAGAGCAGGGCATCACAGTGGGCTGCTGGGACTTGTACAGACATGATATTGACTGCCAGTGGATTGACATCACGGACGTTTCGCCAGGAAACTACATTCTGCAGGTCATAATAAATCCCAACTTTGAGGTCGCTGAGAGCGACTTCACCAACAACGCCATGCGGTGCAACTGCAAATACGACGGCCATCGTGTCTGGTTGCATAAATGTCATCTCGGTGATTCTTTCAGTGAGGAGGCCGAGAAAGAGTTTGAACATTATCCCGGGCAGCTCAACAACAAGATCTCATAA

Function

symbol description
loxl3a Predicted to enable fibronectin binding activity and protein-lysine 6-oxidase activity. Predicted to be involved in several processes, including collagen fibril organization; fibronectin fibril organization; and negative regulation of T-helper 17 cell lineage commitment. Predicted to be located in cytoplasm and nucleus. Predicted to be active in extracellular space. Is expressed in head mesenchyme; mesenchyme; and notochord. Orthologous to human LOXL3 (lysyl oxidase like 3).

GO:

id name namespace
GO:0006954 inflammatory response biological_process
GO:0030199 collagen fibril organization biological_process
GO:1905590 fibronectin fibril organization biological_process
GO:2001046 positive regulation of integrin-mediated signaling pathway biological_process
GO:0055114 oxidation-reduction process biological_process
GO:2000329 negative regulation of T-helper 17 cell lineage commitment biological_process
GO:0061053 somite development biological_process
GO:0060021 roof of mouth development biological_process
GO:0030324 lung development biological_process
GO:0018057 peptidyl-lysine oxidation biological_process
GO:0021510 spinal cord development biological_process
GO:0005576 extracellular region cellular_component
GO:0005615 extracellular space cellular_component
GO:0005634 nucleus cellular_component
GO:0016020 membrane cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005507 copper ion binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0016491 oxidoreductase activity molecular_function
GO:0016641 oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor molecular_function
GO:0004720 protein-lysine 6-oxidase activity molecular_function
GO:0001968 fibronectin binding molecular_function
GO:0005044 scavenger receptor activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-070818-2 Predicted to enable fibronectin binding activity and protein-lysine 6-oxidase activity. Predicted to be involved in several processes, including collagen fibril organization; fibronectin fibril organization; and negative regulation of T-helper 17 cell lineage commitment. Predicted to be located in cytoplasm and nucleus. Predicted to be active in extracellular space. Is expressed in head mesenchyme; mesenchyme; and notochord. Orthologous to human LOXL3 (lysyl oxidase like 3).

Ensembl:

ensembl_id ENSDARG00000076306

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00015062 False 2220 mRNA 0.54 13 5866894 5912716
TCONS_00015064 False 2529 mRNA 0.53 15 5866894 5916580
TCONS_00015063 True 2373 mRNA 0.53 14 5866894 5916580

Neighbor

gene id symbol gene type direction distance location
XLOC_007680 kazald2 coding downstream 49855 5804928 ~ 5817039 (-)
XLOC_007679 tlx2 coding downstream 176531 5656510 ~ 5690363 (-)
XLOC_007678 npm1b coding downstream 224433 5588029 ~ 5642461 (-)
XLOC_007677 BX276088.1 coding downstream 303703 5560755 ~ 5563191 (-)
XLOC_007676 fgf24 coding downstream 320397 5506983 ~ 5546497 (-)
XLOC_007682 FP103005.3 coding upstream 238794 6155374 ~ 6158751 (-)
XLOC_007683 FP103005.1 coding upstream 270134 6186714 ~ 6186833 (-)
XLOC_007684 NA coding upstream 276669 6193249 ~ 6204004 (-)
XLOC_007685 hdx coding upstream 293230 6209810 ~ 6229020 (-)
XLOC_007686 elp1 coding upstream 329362 6245942 ~ 6286966 (-)
XLOC_007641 CU855896.1 misc downstream 3459054 2407736 ~ 2407840 (-)
XLOC_007640 CU855896.2 misc downstream 3459463 2407328 ~ 2407431 (-)
XLOC_007639 CU855896.3 misc downstream 3459822 2406945 ~ 2407072 (-)
XLOC_007674 NA non-coding downstream 537718 5327056 ~ 5329176 (-)
XLOC_007673 BX510929.1 non-coding downstream 754103 4952114 ~ 5112791 (-)
XLOC_007672 NA non-coding downstream 982449 4861940 ~ 4884445 (-)
XLOC_007671 NA non-coding downstream 1022449 4832678 ~ 4844445 (-)
XLOC_007687 NA non-coding upstream 413661 6330241 ~ 6402769 (-)
XLOC_007688 CT009487.1 non-coding upstream 545693 6462273 ~ 6479403 (-)

Expression


Co-expression Network