XLOC_004220 (pcdh17)


Basic Information

Item Value
gene id XLOC_004220
gene name pcdh17
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 32576300 ~ 32723851 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00008074
TTGGACTGGCTTGTTTGaccttttttctattttttaaaaatctttttcctCAAGGGACTGGACGTATAGCCTCTTGTGGGGCCAGGACGCATTTATCACGGGGATGTCTCACCCCGCATCATTGCAGTACAAGAGGCAGTTCGCGCTGGTGATATCAACGGTTGTGGATGTATATTTTACGTCTGGGTCAAGGTATCTGTCCTGTAGCGTCTCCAGCCTGAGTCCATGAGCGGAGGAGAGTCACTGCATCCTAATCAGCCTCATTGACATTACAAGCGCACTTTTGGGGAGCACTTTATTTTTCCATATAGTCCACTCGGAGATTTTTTTACACTCATTTGGAAGTTGAATGAAGGATGTAACTCGTCTTTGGTGATGGTTGTGTTTAGACCGGATAGCAAGCTACAGGCGAAGAGGCTGGGAAAGGCTATTTCTTTGTGGAAACTGGATTGTGATTATGCCTCCAATGCGCCTGGGCGTTCAGCAGAATATAAATTAGCTGTACAGCCTCACCGTTTGTTGTAAAAACTCAGGATAAAGGGATTCCAGCTACAGAGGAGAGAAAAGAGCATTCAAAGGAAAAGCCCACATAATGACTTTATACCGTTTTTTATCATGAATTGGCATGTGTGTTCAGCATTTGAAGGTATAAATTGTGATACTGCCGAGAAGATCAACAGGTCGGAGGCGTGAAACGCATCAGAAACCCAAGGCACTCTCACTGAAAGGGATGCATCTTTCTGTTTTCCTTTTCCTACTTTTATGGGCGCAAGCCCTGACGCTGAAAAACTTGAACTACTCAATACCTGAGGAAAAAATTCAGGGTGTCATTGGAAACATTGCCAAGGATGCAGAGCTGGAACTGGGAGAGCAGGGGAAAAAATCCAACTTTAGGGTGTTGGAGAACTCCGCCCCACACCTTATCGATGTGGATCCCGAAAGTGGGCTATTATACACTAAACAGCGGATCGACAGGGAAACACTGTGCAGACAAAACTCCAAGTGCCAGCTCTCCATGGAAGTGTTTGCCAACGACAAGGAGATCTGCATGATTAAAGTTGAGATACAGGACATAAATGACAATGCACCGAGCTTTCCTTCTGAACAAATCGATATTGACATATCTGAGAATGCAGCCCCAGGCACACGTTTCCCCTTGGCTGCTGCCTACGACCCTGACACTAAGGAAAACGGCCTGAAAACATATCAGATCACTCGGGACGATTACAGTATATTTTCTTTGGATGTCAAATCCAGAGGGGATGGAACTAAATTCCCTGAACTGGTCGTTCAGAGGTCTTTGGATCGAGAGGAACGTAGCCATCATACTTTAATTATAACCGCCACAGATGGAGGGGAATACCCCAAATCAGgcacaatgcaaatcaatgtaaaaGTCACTGATTCCAATGACAACAGCCCTGTGTTTGAACAGCCCTCATATGTAGTGGAGATTCCTGAGAATGCACCGCTAGGCACAGTAATAATAGATTTAAATGCTACAGATTCTGATGAAGGGATTAATGGGCAGGTTACTTATTCTTTTAGCTGTTATGTCCCAGACAGGATCAAAGAGTTGTTTTCAATAGACCCACGAACTGGTGTCATAAAGATTCAGGGTAAAATCGACTTTGAGGAGAACCCAATTATAGAGATTGATGTTCAGGCAAAGGATCAAGGACCCAACCCAATTCCTGGCCATTGTAAAGTCACTGTTAAAGTGCTTGACAGGAATGACAACTGGCCGTCAATAGGTTTTGTAGCGGTGCGTCAGGGGGCGGTTAGTGAAGCAGCAACTCCAGGGACAGTGATTGCACTCGTGAGAGTCACAGACAAAGACTCTGGCCGCAATGGGCAGCTCCAGTGTAGGATTTTGGGCAATGTTCCTTTCAAGCTGGAGGAGAACTATGATAACTTTTACACTGTAGTGACTGACAGACCCCTGGATAGGGAGGTAAAAGATGAATATAACATCACTATTGTGGCCAAAGACAATGGCAatccacccctaaactcaacaaAGTCTTTCACTGTAAAGATTTTAGATGAAAACGACAACGCACCACGCTTCACAAAAATGGTCTACCTTCTGCAGGTGCCTGAGAACAACATCCCAGGTGAATACCTGGGTTCTGTTCTGGCCCATGACCCAGATTTAGGCCAAAACGGCACTGTGTCCTATTCTCTCCTACCCTCTAATGTAAGCGAGGAATCTATCACTACGTATGTTAACATTAAACCCACTGATGGTGCAATATATGCTCTGAGGAGTTTCAATTATGAGCAAACCAAGTATTTTGACTTTAAAGTCCAGGCGAAGGATTCTGGAAACCCTCACCTGGAGAGCAACACCACAGTCCGGGTGAGTGTGCTGGATGTTAACGATAATATTCCTGTCATTGTCCTTCCATTGCTTCAGAATGACACTGCTGAGATCCATGTACCTCGGAATGTAGGAGTCGGACATATTATCACCACCGTAAGAGCGGTGGACAACGACTTTGGCGAGAGCGGTCGGCTCACCTACGAGATCTCAGATGGGAATGAGGAACACCTGTTCGAGATTGATTCGGTGACAGGCGAGGTGCGGACAGCTCAGCCATTATGGGAGGAGGTGACACCTGTTGTGGAACTCATTATCAAGGTCACTGATCATGGCAAGCCTTCATTGTCCGCTATGGCAAAACTTATCGTCAAAGCCTACTCTGGGCCCTTACCAGAAGGCGAACCACGCATTAACGCAGAACACCACAACTGGGACATGTCACTCCCTCTGATAGTAACTCTAAGTATCATTTCTATTATGCTCCTAGCAGCCATGATCACCATCGCAGTGAAATGCAAACGGGAAAACAAGGAAATCCGCACATACAACTGTCGCATCGCTGAGTACTCCCACCCACAACTCGGTAAGAGCAAGAAAAAGAAGATCAACAAGAACGACATCATGCTGGTGCAAAGTGAAGTGGAGGAACGGGACACCATGAATGTTATGAACGTTGTCAGCAGTCCCTCTCTGGCCACCTCACCCATGTACTTTGACTACCAAACTCGTTTGCCCCTCAGCTCTCCAAGGTCGGAGGTCATGTATCTCAAACCCACTGCCAACAACCTCAGCGTTCCTCAAGGGCACGTTGGCTGTCACACCAGCTTCACCGGACCTGTTACCAACACCACAGAGACCCCAGTCAACAGGATGTCAATAATACAGACAGACAATTTTCCTGCTGAGCCCAATTACATGGGTAACAGGCAGCAGTTTGTTCAAAGCAGCTCAACGTTCAAAGATCCAGAGCGTGCCAGTCTCAGAGACAGCGGACACGGGGACAGCGACCAAGCGGACAGCGATCAGGACACTAATAAAGGCTCCTGCTGTGACATGTCTGCTAAAGAAGCGCTCAAGATGAAGGCCACTGGACTCAAGCCTCAGCCACTTGAACAGGAAGAGGATTGTTTGAACTGCACGGAGGAGTGTCGAGTGCTGGGTCACTCGGACCGTTGTTGGATGCCTCAGTTTCCCGCAGGCGCCGGAGGAGCAGGAACTCCCCAAGCCGAGGGTTCGGACTACCGCACCAACCTCTTCGTCCCTGCTGGCATGGAGGCGGTCGCTGTGGAGACTGAGACTTACGAAACGGTTTGCAACcccaatggaaaaaaaactttctgCACATTCGGAAAGGAGCGCCGGGACCATACCATCCTGGTGGCCAACGTTAAACCCTATCTAAAGACTAAACGTGCCCTCAGCCCGCTCTTGCAGGAGGTCCCATCTGCCTCATGTAGCCCTACCAAAGGCTGCAGTACAGGATCCCCGTGCTCTTCGGCCAAAGGCATGGGCGACGGAGCCGAAGGCAAACCCAGCACTAGCCACTACGGACCCCCAGATGGACAGTACATCTCCCCAAACAAGCAGAACAAAGAGCAGGGCTACTCCACACTGCCTCCTTCTGATCCCGTGGCTAAAGTCCTGGCTGAAGCCCGTTCGCGGATCAGCCAGGAGACAGCGGTGGAGATGGACTGCGTCTTAGAGCAGGGTGGAGGAGAGATGGGACGGAGCACCATGGACGCAGACCAGGTGGTCAGAGACATCGACAAACTCCTGCAGGATTGTCGGGGAAATGAAAACACCCCCATCAGAAAATAAAACGCACTTTGAGCAAAAGGAAACATGGACCAAGTCGAGACGCTCTCCGAGAGAGTGCGAGTGGAGATCGGGACATATttcaaggacaaaaaaaaaaacatgcgtaCTTGAAGACCTGGACAAATAAACATAAGGAGCAAAAAAACTGTTTGCTTTTGTTCGTCCGGACGCCGTGTTGTGTTTTGGGGGCAAGGGAATTTCTTTTGGAGTTGCAGAAGGTGCTGCTTCTGGCTTCTTGTgagctttttcttcttcttcaagtGCCCACCAGCTTCAAACTCTTTCCTAAAGTGACGTCTTTCTGTCACTGACCCATAGATGGAGCGTCCCATCCTTCTCCTCCAGGGACTTATGAAGGGGAAGGGGTGGACGAAATATGGTTTGTTCTGACAATCGCTAGTCAAATGGGTTTGGGGTGCGTCGGACACCCAGAATTGTTGGACCACATCAAGACAGAGACTCTCTCTTTAACTTTTAATGGCTTTGTAATATCAGCATAAGAAGTGCAAACGATATCAGCAAACTCTTAAGTGGGTGTGAATCTTTCGGGTGGGTGGGGAGGGTTGATTATGAAATGTAACCATTCTTCACCTGTCATTTCTAGTCACGTGTAAAACTGTGTCCTCTCCCCATGTATACGTACATATGGAACATTCCAGAACGGTGAACCTGTTACTCTCACTTATTGGTCCTCTGTGATCATCTGTCTTCAGCTTTTCACTACTTTTAAAGTGACTCTCCACGTGTCCGACGTTAAGTTATAACAGTCACTCTCTTGTATATTAGGGACATTTTTCCTCAACTGTGAAAagatatatctatatatacatatagataaatatatatataaatatatgagctTATGTATAGTGTCCAGATaacaatgaaaatatttatacattttgtaaaaaaaaacaaaggtggAAAAACTTTAATCTCAGAAAAAAAGGAGGGTGCGCACAGGATGAAAATGCAGTTGAAGATATTTATTAAACTGCAAAGGACACTGTTTCGATTTTCGATCAACAacgatgacaaaaaaaaaaagattttaaaaaaggaaatgtCCCTTCACATTGTCACTTATACACAATATCATTTTAATGTGCAAAATGTATCCAATTTAATGTGTTTACatcaaaacaacatatttttattgatttttctgCAGTTTCTGTGCATTTGAGCCAAATTGTTACGTGTACAAGAGCtatattgtgtattttattaaattaatatatggtTGTGTTGTAA

Function

symbol description
pcdh17 Predicted to enable calcium ion binding activity. Acts upstream of or within axon extension; axon guidance; and camera-type eye photoreceptor cell differentiation. Predicted to be located in plasma membrane. Predicted to be integral component of membrane. Predicted to be integral component of plasma membrane. Is expressed in several structures, including brain; immature eye; retina; spinal cord; and spinal cord neural tube. Orthologous to human PCDH17 (protocadherin 17).

GO:

id name namespace
GO:0060219 camera-type eye photoreceptor cell differentiation biological_process
GO:0048675 axon extension biological_process
GO:0007411 axon guidance biological_process
GO:0060041 retina development in camera-type eye biological_process
GO:0007155 cell adhesion biological_process
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules biological_process
GO:0005886 plasma membrane cellular_component
GO:0005887 integral component of plasma membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005509 calcium ion binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-090608-3 Predicted to enable calcium ion binding activity. Acts upstream of or within axon extension; axon guidance; and camera-type eye photoreceptor cell differentiation. Predicted to be located in plasma membrane. Predicted to be integral component of membrane. Predicted to be integral component of plasma membrane. Is expressed in several structures, including brain; immature eye; retina; spinal cord; and spinal cord neural tube. Orthologous to human PCDH17 (protocadherin 17).

Ensembl:

ensembl_id ENSDARG00000027041

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00008074 True 5398 mRNA 0.46 5 32576300 32723851

Neighbor

gene id symbol gene type direction distance location
XLOC_004218 NA coding downstream 12578 32457316 ~ 32563722 (-)
XLOC_004219 NA coding downstream 102917 32472783 ~ 32473383 (-)
XLOC_004217 NA coding downstream 184912 32365912 ~ 32391388 (-)
XLOC_004216 NA coding downstream 418774 32150218 ~ 32157526 (-)
XLOC_004215 AL844172.2 coding downstream 703672 31869020 ~ 31872628 (-)
XLOC_004221 BX000696.1 coding upstream 7314 32731165 ~ 32737593 (-)
XLOC_004222 NA coding upstream 86120 32809971 ~ 32942872 (-)
XLOC_004223 NA coding upstream 206668 32930519 ~ 32932627 (-)
XLOC_004224 NA coding upstream 253431 32977282 ~ 33064553 (-)
XLOC_004225 NA coding upstream 439329 33163180 ~ 33179795 (-)
XLOC_004063 CR854846.1 misc downstream 16448622 16127382 ~ 16127678 (-)
XLOC_004019 CR450764.8 misc downstream 19884609 12691395 ~ 12691691 (-)
XLOC_004015 CR450764.4 misc downstream 19954533 12621518 ~ 12621767 (-)
XLOC_004013 CABZ01022569.1 misc downstream 19985004 12590999 ~ 12591296 (-)
XLOC_004008 BX000700.19 misc downstream 20063038 12512966 ~ 12513262 (-)
XLOC_004212 NA non-coding downstream 1364992 31204925 ~ 31211308 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000306_06998286_07073243 PCDH17 coding CI01000306 null 6998286 ~ 7073243 (-)
bowfin (Amia calva) G71371 NA non-coding CM030128.1 CM030128.1 20073025 ~ 20078009 (-)