XLOC_007949 (gpc4)


Basic Information

Item Value
gene id XLOC_007949
gene name gpc4
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 31090151 ~ 31151148 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00015522
GCAACCAGAAGTGCCAATCGAAGAGATTTCGTGACTGAACCTTttgttttgtattcatttttGGTGCTTCATTACTTAAGCAGTCAGCGATGAAGATGATCGTTGTGTTTACAGTATGTATGTCTGTGGTGGTTTTGGCGTCGGCTCAGGCTGATCAGAAGTCAAAGAACTGCAATGAAGTCAGAACTGCCTACAGTTCCAAAGGTTTCAACGTCAACGATGTTCCCAACAAAGGAGTGCAGGgAGCCCATCTGAAGGTGTGTCCTCAAGGTTTCTCCTGCTGTACTCTGGAGATGGAGGAGAAGTTGAGTCAGCTGAGCCACGTAGACCTGAAAGTTCCCGTTCACCAGCTCAGCTCCAACCTGCAGAGCACCTTCACCCAGAGACACCGTCACTTTGACCAGTTCTTCAGAGAGCTGTTGGACAATGCAGAGAAGTCTCTCAATCACATGTTTGTGCGGACGTATGGCTTGATGTACGTCAAGAACAAAGAGCTCTTTGAGGGTTTCTTCAGTGATCTGCGCCGCTACTACAGCCACGGCAGCAGTGAGGTCAATCTGGACGACATGCTGGCCGAGTTCTGGTCTGAACTGCTGGAGCGCATGTTTCGACTGGTCAACGTCCAGTACGAGTTCAGCGACTCCTACATGGAGTGTGTCAGCAGGCACACGGACCAGCTCAAACCCTTCGGAGACGTTCCACGCAAGCTCCGTCTGCAGCTGACCCGCTCCTTCATTGCTGTTCGCGCCTTCACTCGTGGCCTCACACTCATGCCTGATGTGGTCCGCAAAGTCTCAACGGTGAGCGCCTCACCGAGCTGTGTGCGCGCATCGATGAAGATGTTATACTGCCCGTACTGTAGCGGTCAGGTGGCGCTGAAGCCCTGCAAGAACTACTGTCTGAATGTCATGAGGGGCTGTCTGGCCAATCAGGCCGATCTGGACACAGAGTGGAATAACTTCCTTGACTCCATGTTAGGTCTCGCTGAGAGGCTGGAGGGACCCTTTAACTTCGAGTCGGTCGTGGACCCCATTGATGTGAAGATTTCAGATGCTATCATGAACATGCAGGAGAACAGCATGCAGGTCTCACAGAAGGTGTTTCAGGGTTGTGGGCAGCCCAAACTCAGCATGGGCTTCCGCAGCCGGAGGTCTGCCAAAGACTCGGGCTTCCCTGGCCGTTTTAGACCGTACAGCCCTGAGGCCAGACCCACCACTGCTGCTGGCACCACCCTGGACCGACTGCTGACGGATGTCAAGAAGAAACTGAAGCATGCCAAGAAGTTCTGGTCCACCCTGCCGGACACAGTGTGTGTTGGAGAAAGGATCGCCCCCAGTGATGATTGCTGGAATGGTACAGCTAAAAGCAGGTACGAATCTGTGGTTATGAGCAGCGGTTTAGCCAATCAGGTGTCTAATCCAGACGTGGAGGTTGACATCACCAAACCAGACATGGTGATCCGGCGGCAGATCGCAGTCCTGAAGGAAATGACCAGCTGGCTGAAAGCTGCTTACACCGGCAACGACATCTCATTTACCTCCGATGATGCCGGCAGCGGAGAGGAAAGCGGAAGCGGCTGCGACTCTCCCTCTTGCGAAGGCGACGGAGATATTTACTTCTCCACCCCGGCACCTGGTAAACCTCGCATCCTCAAGACTCAGGAGGGCGAACAGGCCTCCAGCGGCACACGGTTGGCACCCTGCAGCCTGGCACTGGCCCTGGCCTCCCTTCTGCTCACCCTGCTCACTCTCCAAACAAGATAAAAGCAGAATCAGCCCAAGAAAGAGCAAGTGATTGGACAAATGTTTTTGACCGCGAGAGCAGAAAACTGCCACAGGACATTAAAGACACTGCTTTCAGGATCTCCATCTGCCTTCCATCCGGGGAAGACACTCAAGTTATTAATATTCACACAACttcagtgtatttttttaatgtttataagaGCGGACTCCATTTTGTGTACAGCTATACGGCTCCATGCAGCATTGCGTCGTCTGGGTCTTTACTTTTTTCTAGCATCAACAGTTTCTTTTATTTCCCCACAGTGTTCGCaattgagagagtgtgtgtgtgtgtggatggtgtGTTTGATTGGCTGTAAATATATATCATCCAAGcgctttttttaaaaagctaaacaaataaTCAACCCATATAACACATGTATGATTTAAGCAAAGCTCTATTTTTATTCCATTATCAGTATGTGTGTTGGCGTGCGTGGAGGTTTCGGTTAGCTATATGTGTTGCTGAAGTTCACGATGCCTTAAATGCTTCATGAAACGCCCTTTATCAGGTCTGCGATGGACAAAAGAAACACATTACGCTGCCTTATGAATGAATTGAGAACAGGATCCCAGACATGCTGTtggttttgtattttgtatttgtttccAAGCAAATTTCACAGCCCAAACGCTTTCAGCgatataatatataacttgagAATATAGTCTTCAGTAATAACTTAATAGTGCgcgaagaagaggaagaagaaggagCTTTGGATAAGTAAGGTCTGTATGAAAGTCACTGATGAATAGGCCTTGATGGCTCAAAGATGATCGTGCAGAGACATGACGTGGACTTCTGACTTAATGGACGATTAGTTATGAAGCAGCTGGAAAGGAGCTGAATTTTACACAGGGTTTTATATGGAGGTGTTTATTTTGCTAGAAGTGTATTGTAAGGTTTAAAACTATATGATAGGTACTGCAGCAGATTTCACAACGCAGCGACAGCCGGTGCTCGTTCCGAGAGGTTGGGTGGCCTTGTTTAAAAACATCAAACGTCCATGCTTTTCTAATTTCCATTGAAGGTggtacacattttaaaaccattCCTCACGTATAAATATAGCAATAGCCTTTGTGTGTGGTAcgagcagatttttttcattcGCACGTCTGACAAGAAAAGCTCTCTTAATCTCAAGGACTTTCCACCCACCTCtcggatataaaaaaaaaagacggaAATCTTGCATCGCTTTTGTACAGTAAGTTATTTAACCACATCTCTTTGAAAGGCATTCGCAAGCACCGCTTTCCTAGTATCTTCAATTCAGTATTGGAAATATTTATGTCTCTAGATGATTTCACAGCTTCACTGATGGTTTTATATCGGCTACAGATTTCATTTTATGTAACGTTTCCATTTTGTAaaccatttttattgttttatattaagtGGGTGGTGAAAATTGTACAAGCTGATGCAAGGACAGGGCTGGCCATCGGTCCTTGATCGTTCCTAATGTCACATGcacttttttaaaagataaaaaaattggCATTCAGATACCTCACCGcaattttaaatgttgtttttaatccTATCTGCGACGTGCACacgcttttattcattcattcagtgtcTACGGATGAATGGCCAGTCCTCAGACGTGAAAAGAAGTCTGAAATGAGTAAAGATCTGTGCAGCAGTGATGCTCCGCACCtcagattgtttgtttgtttgtttgtttgtttaaattgaggCATGAATAGGAAGCTGTACGTGTTTTCTGTTCATCCCGATGACCCAAAGCTTCCCACAGTCACATGTTTTATGATGGCTCTGATGTAAAGAAGACCAGGAAAGGAGGAAGTGTCTTGTGCTTGTATGTGGAGCTGCTCTGAGTCAGTGTGAAGATGACATGGACTTTACGGATCAGGAAAGCGATCCTCTGCGGTGTCATCTTTAAGTTTGAGTGCTGAGCTTCAGGCGGATGGATTGCAGAGCCTACAGCTCTGTACATcagtgatgaggaggaggaggaggagggagagAGACTAAAGAAAGAAgaggagaaaagaaaaacaattgtaaataatGAGCAGTCGATTTAGTGGTCTCTGAGAGATGTTCATCAGATTTTACCCATTCAGAGTATGTGCTTAATATGGGCAAAACCAAGAGAGATAGATGCTAAAAATGTAAGAGAAAAGTTATATTAAACATTTCTTAGTCTTGTTGAAATAAAGACTGCAGATATT

Function

symbol description
gpc4 Acts upstream of or within several processes, including animal organ development; gastrulation; and post-anal tail morphogenesis. 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 several structures, including axial chorda mesoderm; blastomere; lateral line system; quadrate-anguloarticular joint; and tail bud. Human ortholog(s) of this gene implicated in Keipert syndrome. Orthologous to human GPC4 (glypican 4).

GO:

id name namespace
GO:0042074 cell migration involved in gastrulation biological_process
GO:0014812 muscle cell migration biological_process
GO:0009826 unidimensional cell growth biological_process
GO:0003379 establishment of cell polarity involved in gastrulation cell migration biological_process
GO:0036342 post-anal tail morphogenesis biological_process
GO:0055001 muscle cell development biological_process
GO:0055002 striated muscle cell development biological_process
GO:0030166 proteoglycan biosynthetic process biological_process
GO:0016477 cell migration biological_process
GO:0001503 ossification biological_process
GO:0051216 cartilage development biological_process
GO:0030198 extracellular matrix organization 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:0060536 cartilage morphogenesis biological_process
GO:0060026 convergent extension biological_process
GO:0060027 convergent extension involved in gastrulation biological_process
GO:0060028 convergent extension involved in axis elongation biological_process
GO:0060030 dorsal convergence biological_process
GO:0030334 regulation of cell migration biological_process
GO:0030903 notochord development biological_process
GO:0001958 endochondral ossification biological_process
GO:1905475 regulation of protein localization to membrane biological_process
GO:0008104 protein localization biological_process
GO:0001702 gastrulation with mouth forming second 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
GO:0005515 protein binding molecular_function

KEGG:

id description
ko04310 Wnt signaling pathway
ko00535 Proteoglycans
ko00537 Glycosylphosphatidylinositol (GPI)-anchored proteins

ZFIN:

id description
ZDB-GENE-011119-1 Acts upstream of or within several processes, including animal organ development; gastrulation; and post-anal tail morphogenesis. 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 several structures, including axial chorda mesoderm; blastomere; lateral line system; quadrate-anguloarticular joint; and tail bud. Human ortholog(s) of this gene implicated in Keipert syndrome. Orthologous to human GPC4 (glypican 4).

Ensembl:

ensembl_id ENSDARG00000015472

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00015522 True 3998 mRNA 0.46 9 31090151 31151148

Neighbor

gene id symbol gene type direction distance location
XLOC_007948 hs6st2 coding downstream 2321 31081862 ~ 31087830 (-)
XLOC_007947 mbnl3 coding downstream 9968 30986754 ~ 31080183 (-)
XLOC_007946 rap2c coding downstream 107140 30975163 ~ 30983011 (-)
XLOC_007945 zgc:92907 coding downstream 118887 30967442 ~ 30971264 (-)
XLOC_007944 il2rgb coding downstream 122867 30961549 ~ 30967284 (-)
XLOC_007950 gpc3 coding upstream 25804 31176952 ~ 31465905 (-)
XLOC_007951 BX248522.1 coding upstream 175453 31326601 ~ 31326717 (-)
XLOC_007952 NA coding upstream 315458 31466606 ~ 31469460 (-)
XLOC_007953 cab39l1 coding upstream 325825 31476973 ~ 31489410 (-)
XLOC_007954 dre-mir-457b coding upstream 370782 31521930 ~ 31522007 (-)
XLOC_007641 CU855896.1 misc downstream 28682311 2407736 ~ 2407840 (-)
XLOC_007640 CU855896.2 misc downstream 28682720 2407328 ~ 2407431 (-)
XLOC_007639 CU855896.3 misc downstream 28683079 2406945 ~ 2407072 (-)
XLOC_007930 FP015860.1 non-coding downstream 553267 30511481 ~ 30536884 (-)
XLOC_007925 NA non-coding downstream 791980 30297374 ~ 30298171 (-)
XLOC_007920 NA non-coding downstream 1383108 29706704 ~ 29707043 (-)
XLOC_007919 NA non-coding downstream 1388517 29701320 ~ 29701634 (-)
XLOC_007918 CABZ01048945.1 non-coding downstream 1737028 29353007 ~ 29353123 (-)
XLOC_007957 BX511227.4 non-coding upstream 481998 31633146 ~ 31635433 (-)
XLOC_007960 AL929434.1 non-coding upstream 708282 31859430 ~ 31859506 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000000_10544400_10562125 GPC4 coding CI01000000 null 10544322 ~ 10563078 (-)
bowfin (Amia calva) AMCG00021361 LOC106586057,LOC106612107,LOC105026369 coding CM030130.1 CM030130.1 15740735 ~ 15752170 (+)