vldlr (vldlr,LOC107548665)


Basic Information

Item Value
gene id vldlr
gene name vldlr,LOC107548665
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047611.1
NCBI id CM018557.1
chromosome length 24879021
location 18491197 ~ 18512931 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026942619.2
cctccacaCGCCCTGTGCTCCGCTCAGCCACACCGGCGCGGTTTATTCGCTGGAGGTTCGCTCGCGCTGTCGGGGAAATAAGGAGGACATTATGAGTCGCGCTCGCACGAGCCGCTCGCGAGCACGGCGCCACTGAACGTGGTTGAGATAAAAGCGCACGCGGCTCCTGCTCAGCTTCTGTTTTGTTCTCGCGCACCGGCTGAGCGCTCGCGCTGCGGTATCCGCGCACAAGACCAAGgtccagagagagaaagagagagtgcgCGCGAGACACGCAACCGCGAAATGGTCCTGTGCGTTCTGGGGTTTCTTCTCCTTCCACTGTGTCTCCAGCTGGTCGGGTTGACCGACGGGTCACGAATAGAATGTGAGCCATCGCAATTCCAATGTGGGAATGGCCGCTGCATCCCATCAGTGTGGCAGTGTGACGGTGACGTGGACTGCACTGATGGCAGCGATGAGAACACGTGTGTGAGGAAGACGTGTGCAGCACAGGACTTTGTCTGCCGCAACGGCCAGTGCATCCCCAAGAGATGGCACTGCGATGGAGAACCTGACTGTGAAGACGGCTCGGACGAGAGCACAGACGTGTGTAATACCAGAACTTGCCGTATGAATGAGTTTAGCTGTGGCACAGGCTCCACTTTGTGCATTCCTGTCTCTTGGAAATGCGACGGCGAGAGAGACTGTGACAACGGAGAAGATGAGGCAAGTTGCGGTAACATCACCTGCTCTCCTCTGGAATTCACCTGTGCCAGTGGTCGCTGTGTCTCCCAGAACTTTGTGTGTAATGGTGAGGATGACTGTGGTGATGGTACTGATGAACTGGACTGCGCTCCCTCCTCCTGCGGCACTAACCAGTTCCAGTGCGGCAGTGCAACGTGCATTCCTATTGGTTGGGTGTGTGACAAAGACGTAGACTGTCAGGACCAATCGGATGAGTCGCCTCTGCATTGTGGGAGGAACCCCACGCCTCCGGCAAAATGCTCAGCTAGCGAGACGCAGTGTGGCTCAGGAGAGTGTATTCACCAAAAGTGGCGCTGCGATGGGGACGCCGACTGCAAAGATGGCAGCGATGAGAGAAACTGCCCTCCGCGCTCCTGTCGCCCGGACCAATTTAAGTGTGACGATGGCAGCTGTATCCATGGCAGCCGGCAGTGCAATGGTTTCCGAGACTGTGCTGATGGCACGGATGAAGACAACTGCAAAAACTTGACTCAGTGTAGTGGCCCAGACAAGTACAAGTGTCGGAGTGGCGAGTGTATTGAGATGAGCAAAGTCTGTAACAAGGTCCGTGACTGCACTGACTGGAGTGATGAACCAATAAAAGAATGCAATCTGAATGAGTGCCTCATCAACAATGGTGGATGCTCACACCTGTGCCGCGACTTGGTGGTTGGCTACGAATGTGACTGTATACCTGGGTTGCAGCTCATTGATCATAAAACCTGTGGGGATATAAACGAGTGTCTGAATCCTGGGATCTGTAGTCAGATTTGCATCAACCTGAAAGGAGGCTACAAATGCGAGTGTCATGAGGGTTATCAGATGAACTCCAGCACAGGAGTGTGTAAAGCAGTAGGCAGAGAGCCTTGTCTGATCTTCACAAATCGGAGAGACATCCGGAAGCTGGGCCTGGAAAGGCGCGAGTACACACAGATAGTGGAGCAGCTGCGCAACACTGTGGCCCTGGACGCAGACTTCAAACACCAGAAGATTTTCTGGGCTGACCTGGGACAGAAAGCCATCTTCAGTACATCACTGGACAAACGTAAAGATGCAAGCAGCCACACCAAAGTGATTGATGTCCAAATGCCTGTGGGGATAGCAGTGGACTGGATCTACAAGAACATCTACTGGTCAGACCTGGGCAGTAAGACAATAGCCGTGGCCAATTTCAATGGCACGAAGCAGAAAGTGTTGTTTGACAGGGACTTAAAGGAGCCAGCTTCCATTGCAGTGGATCCTCTCTCTGGGTTCCTTTACTGGTCAGACTGGGGTGAGCCAGCCAAGATTGAGAAGTCTGGAATGAATGGGGTAGACAGACAGGTCCTGGTTGAAACTGACATTCAGTGGCCCAATGGTATTACCCTTGATCTGATCAAAAGCAGACTTTACTGGGTGGATTCCAAGCTGCACACACTGTGTAGTGTGGATCTAAATGGAGATAACCGGAAAAAAGTCCTGCAGTCCCAAGACTACCTGGCTCACCCCTTTGCCCTCACAGTGTTTGAGGATCGTGTTTTCTGGACAGATGGTGAGAGTGAGGCTATTTATGGGGCAAACAAGTTTACAGGATCAGATGTGATTATGCTGGCCAGCAACCTGAATGAACCACAGGACATTATTGTCTACCACGAACTCGTACAGCTGTCCGGCACCAACTGGTGCAACGAGAAAGTAGAAAATGGAGGCTGTTCCTACATGTGCCTACCAGCACCTCAAATCAACAAACACTCCCCCaagtatacgtgtgtgtgtcccgAAGGTCAGGAGCTGGCCTCAGACGGCTTGCAATGCAGATCAGTGGCATCTACAGCTGTTCCACAAGATGAAGGGCAGCCCACACAACCCACACATCCTCCAGACACTCCAAAAGACACTCCAAAACCCAAGGTCGCAGCGCAGTCAGAGCCCACTGAAAGAAATCTCAGCACCTCCATACATGAGGTGAAATCAGCCAAAGGATCAGCTGCAGCCTGGGCAGCTTTGCCAGTGTTGTTGCTGGCCATGACTGCAGTTGGGGGTTACGTAATGTGGCGAAATTGGCAGATGAAGAATAAAAAGAGCATGAATTTTGATAATCCGGTGTATCTGAAGACTACAGAAGAAGACCTCAACATCGACATCAGCAGACACACTGCCTCAGTTGGTCACACATATCCTGCTATTTCTATAGTAAACACAGAAGATGACATGCCATAACCAGGCCTCTACACTGCTCCTATTTATGAACTGTGCACTTGGGACACTCGCCAAACATTGCTGTTCCAGCAGGCTGACAGTTAGATGCCTTCTGAAGTGCATTTCTCCATTGTTTCTTAGGGGTggtgtgtgtctttttgtgtgAAATATGATGATGACTTGCTTCCTTCTCACAATAAACATGCCCAAAGCATTATGTAACTGAGGACGTGGCCTTTTACTGATCCTGCCACAATCTTGGTCCATGCAAAATGATTGACCAACTTGACAGCTCGCATTCTTGAGAAGAGAAATTGGACAGAGACCAAGAATCTAGACATGGCTAGTGCTTTtgagcattttgtgtgaatgaatgtttagatgaaatctgaaaatgtaagtggttttttttttttttttttaaaaccctgaGGAACATTTACCTCTAGAAGCACATTCTTATAATGCTTCTTGTGTCCatcctggggaaaaaatgtaagtTCTATAAGAGGAGTGCTGTCGGAACACttgtaaaatgctgtaaatatccCTAACTTAAAGAGTAATCAGGATTCTCCAAGCACTTTGGTCAAATGGTCATGTGTAAATAAGATTGTATACAATTGACTGAAACAATTTTGCTATGGTGGGGTATAGTACCAGGGtagattaaaatgtatttaaaaaggtTTGTTAAActattttgtatgtttgtgctGTTCCTGTAACTTTTTTATAGCATTATACAGGAAGGAGAAATTACCTGTATTGAAGAAATTTgcaaatacttaaaataaaagGACATGGTCAGTTGTATATCA

Function

symbol description
vldlr Predicted to enable calcium ion binding activity and very-low-density lipoprotein particle receptor activity. Predicted to act upstream of or within cholesterol metabolic process; endocytosis; and lipid transport. Predicted to be located in clathrin-coated pit. Predicted to be integral component of membrane. Predicted to be part of very-low-density lipoprotein particle. Is expressed in several structures, including axis; brain; pronephric duct; retinal ganglion cell layer; and spinal cord interneuron. Human ortholog(s) of this gene implicated in Alzheimer's disease; cerebellar ataxia, mental retardation and dysequlibrium syndrome; and dementia. Orthologous to human VLDLR (very low density lipoprotein receptor).

NR:

description
PREDICTED: very low-density lipoprotein receptor isoform X1

GO:

id name namespace
GO:0016021 integral component of membrane cellular_component
GO:0005509 calcium ion binding molecular_function

KEGG:

id description
K20053 VLDLR; very low-density lipoprotein receptor

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026942619.2 True 3725 mRNA 0.49 20 18491197 18512931

Neighbor

gene id symbol gene type direction distance location
sh3bp2 sh3bp2 coding upstream 4270 18471533 ~ 18486927 (+)
trnam-cau_45 NA coding upstream 28005 18463121 ~ 18463192 (+)
trnar-ccu_16 NA coding upstream 28086 18463039 ~ 18463111 (+)
trnam-cau_44 NA coding upstream 28812 18462314 ~ 18462385 (+)
trnar-ccu_15 NA coding upstream 28893 18462232 ~ 18462304 (+)
kcnv2a kcnv2,kcnv2a,LOC108428855,LOC107558705,LOC107726563,LOC107667263 coding downstream 730 18513661 ~ 18515818 (+)
dusp11 dusp11 coding downstream 50812 18563743 ~ 18570535 (+)
ess2 dgcr14,LOC107758656,LOC107746196 coding downstream 59198 18572129 ~ 18578988 (+)
dgcr2 dgcr2 coding downstream 70527 18583458 ~ 18595819 (+)
orai1b orai1b,LOC108276842,LOC108425168,LOC107746203,LOC107758661,LOC107602056,LOC107689140 coding downstream 83691 18596622 ~ 18600970 (+)
LOC117599343 NA non-coding upstream 64007 18426072 ~ 18427190 (+)
G271340 NA non-coding upstream 142813 18298122 ~ 18348384 (+)
G271235 NA non-coding upstream 365405 18124822 ~ 18125792 (+)
G271104 NA non-coding upstream 717817 17769769 ~ 17773380 (+)
G271102 NA non-coding upstream 726668 17759550 ~ 17764529 (+)
G271542 NA non-coding downstream 400326 18913257 ~ 18913627 (+)
G271544 NA non-coding downstream 405078 18918009 ~ 18918576 (+)
G271545 NA non-coding downstream 405663 18918594 ~ 18919467 (+)
G271548 NA non-coding downstream 410433 18923364 ~ 18923583 (+)
G271550 NA non-coding downstream 410884 18923815 ~ 18924071 (+)
G271406 NA other upstream 83699 18404269 ~ 18407498 (+)
si:ch73-234b20.5 LOC108276836,LOC108440734 other upstream 1390128 17099096 ~ 17101069 (+)
trnam-cau_42 NA other upstream 1401819 17089307 ~ 17089378 (+)
trnar-ccu_13 NA other upstream 1401898 17089227 ~ 17089299 (+)
trnam-cau_41 NA other upstream 1402597 17088529 ~ 17088600 (+)
G271863 NA other downstream 728778 19241709 ~ 19243905 (+)
LOC113544086 LOC108261382,LOC108276944,LOC108262018 other downstream 863161 19376092 ~ 19414627 (+)
LOC113544004 LOC108276941 other downstream 976275 19489206 ~ 19520777 (+)
LOC113543969 NA other downstream 1269496 19782427 ~ 19786831 (+)
G272180 NA other downstream 1280981 19793912 ~ 19825232 (+)

Expression


Co-expression Network