CI01000304_04346530_04362348 (VLDLR)


Basic Information

Item Value
gene id CI01000304_04346530_04362348
gene name VLDLR
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000304
NCBI id null
chromosome length 18613800
location 4346530 ~ 4363156 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000304_04346530_04362348.mRNA
GTTCCCGAACAGAATGTGAGCAGTCTCAGTTCCAGTGTGGGAATGGCCGGTGTATTCCGTCTGTGTGGCAGTGCGATGGCGACATGGACTGCTCGGACGGGAGTGACGAGACGTCCTGCGTGAGGAAGACTTGTGCCGAGGTGGACTTCGTCTGTCGCAGTGGACAGTGTGTTCCCAAGAGATGGCAGTGCGATGGTGAACCAGACTGTGAGGATGGCTCAGACGAAAGCATCGAAATGTGCCACACGAGAACCTGTCGAGTGAACGAGTTCAGTTGTGGCGTCGGCTCCACACAGTGCATTCCTGTCTTCTGGAAGTGTGATGGTGAGAAAGACTGCGACAACGGAGAGGACGAGATTAATTGTGGAAACATTACGTGCGCCCCTCTGGAGTTCACCTGTGCCAGTGGTCGCTGCGTGTCTCGTAATTTCGTCTGTAATGGTGAGGATGACTGTGGGGATGGCAGCGACGAACAGGACTGTGCTCCGTCCTCCTGCGGACCCAGTGAAGTTCCCTGTGGGAACAATACGTGCATTCCTAGAAGCTGGCTATGCGATGACGATGTGGACTGCCAGGACCAATCGGATGAGTCGCCAGAGCGTTGCGGCCGCAACCCAACGCCGCCAGCTAAGTGTTCACCCAGTGAGATGCAGTGCGGCTCTGGGGAATGCATACACAGGAAGTGGCGCTGTGACGGGGACCCAGACTGCAAGGATGGCAGTGACGAGAAAAACTGTTCTGCCCGTACCTGCAGGCCCGACCAGTTCAAGTGCGATGACGGCAGCTGTATCCATGGCAGCCGACAGTGCAACGGGTTCCGAGATTGTGCAGACGGCACAGATGAAGTCAACTGCAAAAACTGTGAGTCCGTTGAACTGAAAAACATTCCCTCAGAATGCTCTACCTGGAAAATAACTCAGTGTAACGGTCCTGACCAGTTCAAGTGTCGGAGTGGAGAGTGCATAGAGATGAGTAAAGTGTGTAATAAAGTCCGTGACTGTCCTGACTGGAGTGATGAACCCATCAAAGAGTGCAATATGAACGAATGCCTGCTCAATAACGGAGGCTGCTCGCACATCTGCCGTGACCTGACGATTGGCTATGAGTGTGACTGCACGCCAGGACTCCAGCTCATTGATCGCAAGACCTGTGGTGATGTCAATGAGTGCCTCAACCCTGGTATATGTAGTCAAATATGTATAAATCTTAAAGGAGGCTATAAATGTGAGTGTCACAATGGTTATCAGATGGACCCCACCTCTGGAGTGTGCAAGGCTGTAGGTAAAGAGCCCTGTCTTATTTTCACCAATCGAAGAGATATCCGTAAACTAGGCCTGGAGCGCCGTGAATATACTCAGATTGTGGAGCAGCTGCGGAACACAGTAGCTCTAGATGCTGACTTCATTCAGCAGACGATATTCTGGGCTGACCTGGGGCAGAAGGCGATTTTTAGCACAGTGTTGGATAAGCAGGAAGCAAGTCATACGAAAGTGATTGACAATGTTCAGATGCCAGTTGGGATTGCAGTGGACTGGATTTACAAAAACATCTACTGGTCAGACCTGGGCAGTAAGAGCATAGCTGTGGCCAACTTCAATGGGACCAAGAGGAAGGTGCTCTTTAACAGCGGCCTGAAAGAACCAGCCTCTATTGCTGTGGATCCTCTTTCAGGATTCCTGTATTGGTCAGACTGGGGCGAGCCAGCTAAGATTGAGAAGTCTGGTATGAACGGGATTGACAGACAAGTCCTTGTTGAGACTGATATTCAATGGCCCAATGGAATCACTCTTGATTTGATTAAGGGAAGACTCTACTGGGTGGACTCCAAGCTGCACATGCTCTGTAGTGTAGACTTGAACGGAGACAACCGCCGGAAGGTGCTGCAGTCACCAGACTACCTGGCCCACCCTTTTGCCCTTACTGTTTTTGAGGATCGAGTGTTCTGGACAGACGGTGAAAATGAGGCCATCTACGGCGCAAACAAGTTCACAGGATCCGATGTAACTGTGCTGGCCAGCAACCTCAACGAACCCCAGGACATCATTGTGTACCATGAGCTAATACAGCTGTCTGGGACCAACTGGTGTAATGAGAAGATGGAGAATGGAGGCTGTTCCTTCATGTGCCTGCCAGCTCCACAAATTAACAAACATTCCCCTAAATTTACCTCATCTGCAATATCGAAGGTTGCCTCTGAACCAGTTCATGCTGAAGGAAACATAAGCACCTCCATACATGAAGTAAATTCATCAGCCAAAGGATCTGCTGCTGCCTGGGCTATTCTACCTGTGTTGTTATTGGCCATGGCTGCCGCGGGTGGTTATTTAATGTGGCGCAACTGGCAGATCAAAAATAAGAAGAGCATGAACTTCGATAATCCAGTATATCTGAAGACCACAGAGGAAGACCTCAATATCGATATCAGTAGACACAGTGCTTCAGTAGGCCACACATATCCTCCTCTTTCAGTGGTAAACACAGAAGATGACTTGTCATAACCCGAACCCCCCACAACACACCAGTTTATTTACTAGCCACTTGGCACCAATGGCAACTGCTGCCGTTTCAACGGTTTCACAACCAGCTGCCTTCTGAAGTGCATTTCCAAGTTTTTTTTCACCCAATAAGAGGATGTCAATTGTGATACAAGAAAGTATTTGCATCCTGTTCATGCCAAGTGTGTTCAAAGCATCAAGGAATTCCGAGGATTTGGGTTTTTACCTTCACTTACACCACAATGGTCCCAAAATGATTCAACAGCCTTACTTTCCTACTTGCAAGGATTACGGCATAGCTGGAGAACAAGAATGCAGATTAGATGGCCAGCAGTGTGTGTGGATTCCCGAAATATTTAAATGAAAATGCATATTTTAGATGGCCATGTCTTTAAGATGTAAGTTTCTTTCTTTCTTTCTGTTTTCCTAATGAACATTATTTCCCGGAGACACATTATTATGAAGCTTCTTGTGTCTTTCTGGGTTAAAAAAGCTCTATAGGAGAAAGTGCTGTTACAACATTTGTAAAACATTGTATATATCACTCTCTGGAAAACATAATCAGGATTCTTCAAGCACTTTGATCAAATGTTCCTCTGTAAATAAGATTGTATACATTTGACTGAGACAATTTTGCTATGGTTGGGCACTGTACCAGGGTAGAGGAAAATGTATTTAAAAGAAAAAAAAAAAAAAGAAGTTTGTTAAAACTATTTTGTATGTTTGTGTGCTGTTCCTGTGAACTTTTATAGCAGTGTACAGGGGAACAAAATGCTCTGTATTGTGAAAAGGAAACATTTGCAAACGTAAA

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).

GO:

id name namespace
GO:0016021 integral component of membrane cellular_component

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
CI01000304_04346530_04362348.mRNA True 3306 mRNA 0.47 18 4346530 4363156

Neighbor

gene id symbol gene type direction distance location
CI01000304_04318151_04331824 SH3BP2 coding upstream 14638 4318151 ~ 4331892 (+)
CI01000304_04236578_04239825 NA coding upstream 106135 4236338 ~ 4240395 (+)
CI01000304_04223309_04223602 NA coding upstream 122761 4223309 ~ 4223769 (+)
CI01000304_04190428_04208535 NA coding upstream 137832 4190428 ~ 4208698 (+)
CI01000304_04170630_04190266 NA coding upstream 156264 4170630 ~ 4190266 (+)
CI01000304_04365876_04367947 KCNV2, KCNV2A coding downstream 2455 4365611 ~ 4368201 (+)
CI01000304_04381131_04396006 TRAPPC13 coding downstream 17975 4381131 ~ 4396075 (+)
CI01000304_04407815_04421342 NLN coding downstream 44198 4407354 ~ 4421434 (+)
CI01000304_04461555_04498385 ERBIN, ERBB2IP coding downstream 98030 4461186 ~ 4499688 (+)
CI01000304_04512680_04515061 ZFAND5B coding downstream 149524 4512680 ~ 4516439 (+)
G420513 NA non-coding upstream 37123 4308819 ~ 4309407 (+)
G420504 NA non-coding upstream 52591 4293565 ~ 4293939 (+)
G420436 NA non-coding upstream 71284 4233809 ~ 4275246 (+)
G420438 NA non-coding upstream 81329 4263448 ~ 4265201 (+)
G420466 NA non-coding upstream 238972 4107238 ~ 4107558 (+)
G420642 NA non-coding downstream 188910 4552066 ~ 4552528 (+)
G420655 NA non-coding downstream 256966 4620122 ~ 4620710 (+)
G420663 NA non-coding downstream 269174 4632330 ~ 4632603 (+)
G420556 NA non-coding downstream 276307 4639463 ~ 4645086 (+)
G420673 NA non-coding downstream 307407 4670563 ~ 4670788 (+)
G420445 NA other upstream 42698 4303336 ~ 4303832 (+)
G418981 NA other upstream 2252852 2092494 ~ 2093678 (+)
G418116 NA other upstream 3471281 872670 ~ 875249 (+)
G418059 NA other upstream 3782079 558092 ~ 564451 (+)
G417987 NA other upstream 4118677 226703 ~ 227853 (+)
CI01000304_05173869_05175309 NRARP, NRARP.L, NRARPA, NRARPB other downstream 810067 5173426 ~ 5176791 (+)
G421162 NA other downstream 1878077 6241233 ~ 6242997 (+)
CI01000304_07352697_07354032 NA other downstream 2989493 7352621 ~ 7354396 (+)
G421435 NA other downstream 3120985 7484141 ~ 7484688 (+)
CI01000304_07979388_07979919 TMEM230, TMEM230A other downstream 3615472 7979078 ~ 7980735 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
bowfin (Amia calva) AMCG00010296 NA coding CM030129.1 CM030129.1 23175774 ~ 23201168 (-)