loxl2b (loxl2b,LOC108255679,LOC108434263,LOC107673422,LOC107721556)


Basic Information

Item Value
gene id loxl2b
gene name loxl2b,LOC108255679,LOC108434263,LOC107673422,LOC107721556
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047618.1
NCBI id CM018564.1
chromosome length 20251756
location 2746147 ~ 2773403 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_034299212.1
ATGGcaaaattgaaaggaaacatactaagaaacagaaacagtatCCTTATTACGTCAAATCCACTTTGAAGCATGGTTGCGTTTACGCGAGCCTGTTTTCAGCACCGTCCCGATTGCAGaacgtagtaattttctttcattacaGGCCCATCGTTAGAGTATCATCGTCGTATAATAATAACACAGACAACCAAGCGAAAAACAGGGGTTTTTTGGGATCATCTCGTACAGTGTCACTCATCCGGCTTTACTCTACACACTTCCATGTCATTAAGGCAAGTCATGAGGGCACGCTTATAGAAAACCGAAACAAGGCCCAAAAGGAGGTAGAAAAGCTCGcttcaatctggcaaccccagGACTCGGGCTGGACTGCAGACAAAAGTTGAGGGAGTTTTTGGGAAACAGATGAGAGGAGACTGAAGCCACATCGGACACAAAAGGACTTGCTGGACATAAACCACAATGCTGGCTCCCTGGTCTCTCCAGTGCCACCTGCCAGTGTTAGCATGCATATGGAGCCTCTGCCAAGCGCAATACGAGTACCTGGCTTACCCCCATGGTTACGCCGAGCCCGAACAGGATCACTACACCCTTCCGCAGATTCCCAGTGATGTGCCCAGGATCCAATTACGCTTAGCCGGAGAGAAACGAAAGCACAACGAGGGACGTGTCGAGGTTTATTACGAGGGTCAGTGGGGGACCGTTTGCGATGATGATTTCAACCACCACGCcgctcaggtggtgtgcagagaGCTCGGGTACTCCAAGGCCATCTCCTGGTCGCCTTCCGCCAAATACGGGAAAGGAGAAGGCCGCATCTGGTTTGACAACGTCCACTGCACAGGGAAGGAGAGCACCCTGGCGCAATGCGAGTCTAACGGCATCGGTGTGTCTGACTGCAAACACTCAGAAGACGTCGGAGTCGTCTGCAGTGACCAGAGGATCCCTGGATTCAGGTTCCTCAATCCAGTCACCAACAACATAGAcCATTTGACCATCCAGGTGGAGGATGTACGCATCAAGCCGATTCTGGCCTCCAACAGGAAGCGAATCCCTGTAACTGAGGGCTACGTGGAGGTCAAAGACGACGGCAAATGGAAGCAGATTTGCGATAAGGAGTGGAGTCCCATGAACAGCAGGGTGATCTGCGGCATGTTTGGCTTCCCTGCTGAGAAGAAATACAACACGCGCGTCTACAAGATGTTTGCGCGCAGGAAGACGCACTCGTACTGGGATTACTCGGTGAACTGCACAGGAAACGAAGCCCACCTCTCGAGCTGTAACCTGGGACATTCGCTTTCGTCCAACAACACGTGTACTAAGGGCATCCCCGTGGTGGTGAGCTGCGTGCCAGGCAGAGCCTTCGCTCCAACCCCCTTATCTGGCTACAGGAAAGCTTTCAGACATGAGCAGCCATTGGTGCGTCTGAAAGGAGGCGCGGTGGTTGGCGAGGGTCGGGTGGAGGTGCTGAAAAATGGCGAGTGGGGCACCATTTGTGACGATCACTGGAACCTTGTGGCTGCCACTGTGGTGTGTCGAGAGCTCGGCTTTGGAACCGCCAAGGAAGCGTTGTCTGGAGGTCAACTGGGTCAAGgAATGGGCCCGGTCCACATGAATGAGGTTCAGTGCTCCGGGTTTGAGAAATCTGTCACCGAATGTGTTTTTAACATGGATAAAGACTCAGAGGGATGCAGCCATGAGGAGGATGCTGGAGTCCGCTGCAACGTTCCTGCTATGGGCTTCCAGCAGCGTCTGCGTCTGAGCGGAGGCCGTAACCCATTCGAAGGCCGTGTGGAGGTGCTGATGGAGCGAAACGGCTCTCTGGTGTGGGGAACGGTGTGTGGAGACGGCTGGAGCACCATGGAGGCCATGGTAGTGTGCAGGCAACTCGGCCTCGGCTTTGCCAGCCACGCCTTCCAGgAGACGTGGCACTGGCCCGGGGTGGTGAGTGCTGACGGTCTAGTGATGAGCGGTGTGCGCTGTGCCGGTACTGAgatgtctctgtctcactgtctgcaTCACGGAGAGCACGTGAACTGCCCCAGAGGAGGAGCGCGATACGCCGCCGGGGTTTCCTGCTCTGAGACCGCGTCAGACCTGGTGCTGAACCCGGCGGTGGTGGAGCAGACCACGTACATAGAGGACCGGCCCATGTTCATGCTGCAGTGTGCGTATGAGGAGAACTGCCTGGCCTCCACGTCCAGCTCGACTCCGGCCAACTCATACCGACGCCTGCTGCGCTTCTCCTCCCAGATCCACAACAACGGCCAGGCCGACTTCAAGCCCAAAGCCAGCAGAGAAACCTGGGTCTGGCACGACTGTCACAGACATTACCACAGCATGGAGGTCTTCACTTATTATGATCTGCTCAGCTTAAACGGCTCAAAAGTAGCAGAAGGACACAAAGCCAGCTTCTGTCTCGAGGACTCGGAGTGTGATGAAGGCATTGAAAAGAAATACGAATGTGCCAACTTTGGTGAGCAGGGCATCACAGTGGGGTGCTGGGACACTTACAGACATGATATCGACTGCCAGTGGGTGGACATCACCGACGTCAAGCCTGGGGATTATATATTCCAGATTGTCATTAACCCCAACTACGAGGTGCCCGAGTCTGATTACACCAACAACATTGTGAAATGCAAGACTCGTTATGACGGCCACCGCATATGGATGTACAACTGCCATATAGGTGGATCAGTGAGCGGTGAAGCAGACATACTGTTTCCTGGCCTTTTGAGCAACCAGGTGACCCTCAGGTAAAAGGTGGACAGGTCTAAATGAGACAACGGAGACACAGAGAGCTCGGACCACTATATTTCCTTCCCTGAATGTTTGGTGCTAAATACATGCACCACTCTGTTGGGATGAAATACCCTCCAAcgcccccccccaaaaaaaatcaccctATATGAGAAAACACACTAAAAACTGTAGGACTTGTAATGATAATTATATCATGATAATGACTAACCTTTTTTTCACTGTATACAGTATTGTCACCATAGTCTCTGTCTATATTTCAATTAGTAGAAAATGCCTAGTGCATTCATCAGTTGTCAATCGGTTTGTCAGTCATCCTTCATGTTTGGCCTCGACCACTATCCTTATGCTTGGGACagaatttttttctcagtattgTGGTACAGTTTGATCGACTGATTATCGGTACATGTCTAGCAAAGCAAAACTCCAACAACTACTGGCACAGGACATCcagaaaagaaacacaacacCAATTTCATAATTAATCACAAGTTGTTTCAAAGTGACTTGAGGTAAGGACAACCCAAACATAATGAATTTGCCTCTACTGGCCTCTGGTGTTGGTGATTCAGCTGATTTTTAAGGAAATTctgatgcacttttttttagccTTAATGGACttgtgcacaaacacaaacacaaaggacTCCTGAAGATCAAAAGGAGCCAGATTTGGGAATTGTATTTGCAAAAAAGTTTGCTACCTTAATATTGTTTCAGTATCGTTCAGTATTTTATGATCATATGTCGTATAACTGCAGTTCTctggagaaataaaacagaaacctTTACTAGCATTGGTGACAACCATGACATTGCATTTCCAGAGTGCTCAGTGCTAAGAACCTTTGTGATATCGAATAGGAATCATGGGCACTTGGACAATCTCGGGAGTTTTACTTACCCAAATATCAGGGCAGAAGATAATTACAACTGGTAATATAGAACAACCAATAAATGCTctaataatactaaaaaaataaataaatacacaatctTGATATTTAATGTTTGTACATTTTCTAAATTCAAAGAAATTTTGAgttttttatgatgtaaaagCAGCAGATTAGCAACTTGACTTATGCTAGTTGTGTGGTGTGCTAGCTTAACATTAGGTAGCCTGTTAACATTGTTAGCTGTTAGCTTTAACTTAACATTAGGTAGCTAGCAGATAAGTATACCTGTGTATATTAGTGCATTTAACAACTAGTGCTCTAACTAGTATACTAGTTAGTAATCTAAAATAAGGAGTTAGGTCAAATTTTAGCAACTACTGAGGATACACTCTGGCTagctacatagctagctaagtaacaacagctagctagctagctatttatgaGCTTATCTGTTAAATGCAGTGAGTATTAGAGGCTCAAAAACAAACCATTGCAGGTACCACCTGAGAGAAGGTAAGTAAAACTCCCTTGAGCTTTTTCAATGaacatctataaaaaaaaataataataaaaaaaaacatttgggaaTATAGTCTAACATTTTGC

Function

symbol description
loxl2b Predicted to enable calcium ion binding activity; copper ion binding activity; and protein-lysine 6-oxidase activity. Predicted to be involved in several processes, including collagen fibril organization; peptidyl-lysine oxidation; and positive regulation of cell differentiation. Predicted to act upstream of or within chromatin organization. Predicted to be located in several cellular components, including basement membrane; chromatin; and endoplasmic reticulum. Predicted to be active in extracellular space. Is expressed in diencephalon; head mesenchyme; hindbrain; notochord; and pectoral fin. Orthologous to human LOXL2 (lysyl oxidase like 2).

NR:

description
unnamed protein product

GO:

id name namespace
GO:0032332 positive regulation of chondrocyte differentiation biological_process
GO:0002040 sprouting angiogenesis biological_process
GO:0030199 collagen fibril organization biological_process
GO:0001837 epithelial to mesenchymal transition biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0055114 oxidation-reduction process biological_process
GO:0001935 endothelial cell proliferation biological_process
GO:0001666 response to hypoxia biological_process
GO:0043542 endothelial cell migration biological_process
GO:0005604 basement membrane cellular_component
GO:0005634 nucleus cellular_component
GO:0005694 chromosome cellular_component
GO:0016020 membrane cellular_component
GO:0005507 copper ion binding molecular_function
GO:0004720 protein-lysine 6-oxidase activity molecular_function
GO:0005044 scavenger receptor activity molecular_function

KEGG:

id description
K00280 LOXL2_3_4; lysyl oxidase-like protein 2/3/4

RNA

RNA id representative length rna type GC content exon number start site end site
XM_034299212.1 True 4277 mRNA 0.47 15 2746147 2773403

Neighbor

gene id symbol gene type direction distance location
sfrp1a sfrp1 coding downstream 33761 2700997 ~ 2712386 (-)
LOC113542490 NA coding downstream 263964 2465572 ~ 2482183 (-)
LOC113542614 LOC108255713 coding downstream 287742 2435324 ~ 2458405 (-)
ogfod2 ogfod2 coding downstream 382992 2357271 ~ 2363155 (-)
tacr1a LOC108255984,LOC108434514,LOC102799894,LOC102196095,LOC102292930 coding downstream 463154 2252981 ~ 2282993 (-)
zgc:153409 LOC106958509,LOC106963510,LOC107723971,LOC107690788,LOC107671222 coding upstream 11158 2784561 ~ 2785074 (-)
LOC113542232 LOC108255682,LOC108434266,LOC108417841,LOC108415785,LOC107715185,LOC107581013,LOC107745493 coding upstream 12036 2785439 ~ 2785937 (-)
LOC113542230 LOC108255680 coding upstream 12846 2786249 ~ 2791574 (-)
hdr NA coding upstream 20052 2793455 ~ 2801554 (-)
tbx3b tbx2a,LOC108255409 coding upstream 394875 3168278 ~ 3200058 (-)
G348296 NA non-coding downstream 151824 2549097 ~ 2594323 (-)
G348311 NA non-coding downstream 197137 2548123 ~ 2549010 (-)
G348310 NA non-coding downstream 198107 2546572 ~ 2548040 (-)
G348309 NA non-coding downstream 199632 2545415 ~ 2546515 (-)
G348283 NA non-coding downstream 321816 2423715 ~ 2424331 (-)
G348640 NA non-coding upstream 376598 3150001 ~ 3150416 (-)
G348661 NA non-coding upstream 425279 3198682 ~ 3198896 (-)
G348663 NA non-coding upstream 430688 3204091 ~ 3205284 (-)
G348662 NA non-coding upstream 432102 3205505 ~ 3207834 (-)
G348669 NA non-coding upstream 449897 3223300 ~ 3223499 (-)
zmat4a zmat4,LOC108434259,LOC107594996,LOC106580521 other downstream 81665 2601534 ~ 2664482 (-)
LOC113542580 NA other downstream 514580 2179539 ~ 2231567 (-)
arvcfb arvcf,arvcfb,LOC107673389,LOC107595013 other downstream 618502 1982054 ~ 2127645 (-)
G348145 NA other downstream 747677 1995902 ~ 1998470 (-)
G348096 LOC108255538 other downstream 917502 1827898 ~ 1828645 (-)
LOC113542231 LOC108255681,LOC107659283,LOC107721542,LOC108434264,LOC107587464,LOC107709859 other upstream 319 2773722 ~ 2831679 (-)
G348491 LOC108255682,LOC108434266,LOC108419634,LOC108415785,LOC108417841,LOC107715185,LOC107690133,LOC107745493 other upstream 11274 2784677 ~ 2785896 (-)
unc5db unc5d,LOC108434269 other upstream 38141 2811544 ~ 2964889 (-)
tm2d2 tm2d2 other upstream 382639 3156042 ~ 3166254 (-)
trpm3 trpm3,LOC108434489,LOC108255677,LOC107595026,LOC107673407,LOC107672763,LOC106928040,LOC106941846 other upstream 546382 3319785 ~ 3387730 (-)

Expression


Co-expression Network