XLOC_000052 (gpc6a)


Basic Information

Item Value
gene id XLOC_000052
gene name gpc6a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 2712956 ~ 3036019 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00000110
AGAGCAGAAGTTGAGAGCGCGCCGCTCCGGATCTATTCTGTCGGTGTCTCCGTCCAAACCGCGCACGCGCTCGTTCCGCTGGTGAATCCTGCTATGAACCGGACGCCACAGCACGCCTGACTGACCATTCAAATCAGCGATTGAATGATTGAAACATTTGTCCACCTGCAGCTGGAGACGCCGGTGCGCTGAGCGCGTCTTGCGGGGTTTTGCGCTTTTACGCATCGGCTGGATTTGCGCGCAGGAGGGATGGTGAAGACACCTGTCGTGGTTTTTACTTCTTTATCGCTTCTGCTGTCGCTGTCATGTGCTGGAGATGTAAAATCGCGCAGCTGCAGCGATGTGCGCCTGGCGTTCACCACCAAAGGCTTCAGTCTCCATAATGTGCCACATCAGGAGATATCAGGTGAGCATCTGCGGGTCTGTGCTCAAGGATACACCTGCTGTACTTCAGACATAGAGGATCAGCTCGGACAGCAGAGCAAGCTGGACTTCGAGAGGCTGGTGGACGACAGCAGCAGGAACATACGCACAACATTCACCTCCAGACACAAAAAGTTTGACGAGTTTTTCCTGGAGTTGCTGGACAACTCTGAGAAGTCTCTAAACGACATGTTTGTGCGCACATATGGCAAACTCTACACACACAACTCGGAGATGTTCGAGGACCTGTTCTCAGAGCTGAAGCGCTACTACACCGGTGGGAACGTCAACCTGGAGGAGGTGCTGAATGACTTCTGGTCGCGTCTGCTGGAGAGAATGTTCCAGCTGCTCAACTCGCAGTTCACCTTCAGCGACGACTATCTGGAGTGCATCAGCAAATACACTGACCAGCTCAAGCCGTTCGGAGACGTGCCGCGAAAACTCAAGGCGCAGGTCACCAAAGCTTTCATCGCGGCCAGATCCTTCGTCCAGGGACTTATGGTGGGCCGAGAAGTGGCCAACAGGGTGGCCAAGGTCAATATTTCTCCAGGCTGCAGTAAAGCATTGACTAAAATGTGGTACTGCCCGTATTGTGGAGGAATGTCAGGACTCAAACCCTGCGCCAACTACTGCCAGAATGTGATGCGCGGCTGCCTGGCCAACCAAGCGGATCTGGACCCTGAGTGGAACCTCTTTATTGATGCCATGTTGCTGGTGGCTGACAGACTGGAAGGGCCCTTTAACATTGAGGCCGTCATGGAGCCCATCGATGTCAAGATCTCTGAAGCCATCATGACCATGCAGGACAACAGCATGCAGGTTTCATCCAAGGTGTTTCAAGGATGTGGTCATCCCAAAGCAGCCAGTGTAGGCCGATCTGCCCGCGGGATCTCGGATGTGTTCAACAGCCGCTTCAAACCCTTCAACAGCCCAGAAGAACGACCCACCACGGCAGCGGGCACCAGCCTGGACAGACTGAGGATTGTCTGGAGGACGATGCAACACAGCgTGGTCGACATTAAGGAGAAGCTGAAGGAGTCAAGGAGGTTCTGGTCGTCTCTGCCTGACAGCATCTGTGCGGAGGACGAGATGACTGACCCAGATGAGGAGCAGTGCTGGAACAGTCATACCAGGGGAAGATATTTCCCAGAAGTGGTAAAAGACGGTCTTACAAACCAGCTGAATAACCCAGAGGTGGAGGTGGACATCACAAGACCAGACACTTTCATCCGACAGCAGATCATGACCCTCAGAGTGATGACCAACAAGCTGAGAAACGCATACAACGGCAAAGACGTCTACTTTCAAGACTCCAgTGATGAGGAGAGCGGTTCTGGCAGTGGCAGTGGCTTCACCACAGAACCTGAAGTGGTTCACACAGAACCGCCGATGCTGGAAGCCGACAAAAGTGACCCACAGCCGCCGACAGACGCTGGATCTGTGCAGCAGAAACCTTCCGTGACTGTACTGAGCATCCCtgcactgctgctgctgctgctgctctgcTGGAGATAATGGCAGATCCTCAGTGGCTCACGGCcacatggacacacacagacGATGTTAGCCTTTCCGCAACCGGACTGAAccttttacac

Function

symbol description
gpc6a Predicted to be involved in several processes, including regulation of neurotransmitter receptor localization to postsynaptic specialization membrane; regulation of presynapse assembly; and synaptic membrane adhesion. Predicted to act upstream of or within regulation of signal transduction. Predicted to be located in collagen-containing extracellular matrix and membrane. Predicted to be anchored component of plasma membrane. Predicted to be active in cell surface and synapse. Is expressed in blastomere and nervous system. Human ortholog(s) of this gene implicated in omodysplasia 1. Orthologous to human GPC6 (glypican 6).

GO:

id name namespace
GO:0016477 cell migration biological_process
GO:1905606 regulation of presynapse assembly biological_process
GO:0098696 regulation of neurotransmitter receptor localization to postsynaptic specialization membrane biological_process
GO:0009966 regulation of signal transduction biological_process
GO:0099560 synaptic membrane adhesion biological_process
GO:1905475 regulation of protein localization to membrane biological_process
GO:0031225 anchored component of membrane cellular_component
GO:0062023 collagen-containing extracellular matrix cellular_component
GO:0005576 extracellular region cellular_component
GO:0045202 synapse cellular_component
GO:0046658 anchored component of plasma membrane cellular_component
GO:0009986 cell surface cellular_component
GO:0016020 membrane cellular_component

KEGG: NA

ZFIN:

id description
ZDB-GENE-071004-15 Predicted to be involved in several processes, including regulation of neurotransmitter receptor localization to postsynaptic specialization membrane; regulation of presynapse assembly; and synaptic membrane adhesion. Predicted to act upstream of or within regulation of signal transduction. Predicted to be located in collagen-containing extracellular matrix and membrane. Predicted to be anchored component of plasma membrane. Predicted to be active in cell surface and synapse. Is expressed in blastomere and nervous system. Human ortholog(s) of this gene implicated in omodysplasia 1. Orthologous to human GPC6 (glypican 6).

Ensembl:

ensembl_id ENSDARG00000103156

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00000110 True 2021 mRNA 0.54 10 2712956 3036019

Neighbor

gene id symbol gene type direction distance location
XLOC_000050 farp1 coding upstream 268746 2301958 ~ 2444210 (+)
XLOC_000051 CR352215.2 coding upstream 309732 2403103 ~ 2403224 (+)
XLOC_000048 kpnb3 coding upstream 413403 2260407 ~ 2299553 (+)
XLOC_000049 CR352215.1 coding upstream 437214 2275605 ~ 2275742 (+)
XLOC_000047 rap2ab coding upstream 472837 2222363 ~ 2240119 (+)
XLOC_000053 NA coding downstream 682647 3718666 ~ 3720603 (+)
XLOC_000054 CABZ01063288.1 coding downstream 723905 3759924 ~ 3760034 (+)
XLOC_000055 slitrk6 coding downstream 1065722 4101741 ~ 4154332 (+)
XLOC_000056 FO744838.1 coding downstream 1562041 4598060 ~ 4680477 (+)
XLOC_000057 NA coding downstream 1865441 4901460 ~ 5030155 (+)
XLOC_000044 NA non-coding upstream 689311 2023409 ~ 2023645 (+)
XLOC_000043 NA non-coding upstream 707324 2001716 ~ 2005632 (+)
XLOC_000034 NA non-coding upstream 1093642 1617203 ~ 1619314 (+)
XLOC_000059 NA non-coding downstream 2275460 5311479 ~ 5313595 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000299_00862803_00911972 GPC6A, GPC6 coding CI01000299 null 862803 ~ 911972 (+)