pde6c (pde6c,LOC107557364,LOC107598595)


Basic Information

Item Value
gene id pde6c
gene name pde6c,LOC107557364,LOC107598595
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047606.1
NCBI id CM018552.1
chromosome length 26563515
location 6273566 ~ 6283915 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026915427.2
CCAGGAGCCTTTTGTGCTTTATGCAGCACTACAGTGTAGGATGCAATTGGGTGAAGGAGAGGTCCAATAAAGCAAGCAATATTGTTCCTCTTCTCCTTTTAGCTTTCTGCAGGTGATGCATCTCCTATAAGGACATCCTTGCGATTACATACCTGATACAAGATGGCAGACAAGGACAGTGTGGAAAAATACTTGGAGAATAACCCACAGTTTGCAAAAGAGTATTTTGATAAGAAGGTGCGGGCTGAAGCCATCACTGCTGCTTTTACGGAGAAGCTCGAGATCAAAGATCCATCCTCCTACAAAGATGTTTCCCAGATCCAGGAGGCTGCCATCATATTTGATCTGGTCAGGGAGTTACAGAGCGAATCAGTCATGGAGGAGAGCATGCACAAGGTCCTCCAGAGGATATGTATGCTAGTGAATGCAGATCGATGCAGCTACTTTATATCTCGAGCTAGGAATGGAATCCCAGAGCTTGCCACATGTCTTTTTGATGTTACGCCTACCTCCAAATATGAGAGCAATTTGGTCAACCCGTTTTCTGAAATTGTGTTCCCCACTGACATCGGCATAGTTGGGCAAATAGCCACAAACAAAAAGGGAGTTAACATACCTGACGTGAAGCAGAACCCCCGGTTCAGTGACTTTGTAGACAACCAGACAGGCTACACcaccaaaaacatgctggctGCTCCCATTCTGAGTGGAAAGGATCTGCTGGGAATCATCATGGCAATAAACAAAGTCGGAGGGACAGAATTCTCCAAAGTAGATGAAAATCTCTTCAACAAGTACCTAAATTTTGCCTCAGCCATCGCCCTTCAGCATTACACCAATTATATGTGGAATGTGGAATCCAGAAGAAGTCAGGTTCTTCTCTGGTCTGCCAGCAAAGTATTTGAAGAATTGACGGACATTGAGAGACAGTTTCACAAAGTTTTGTACACTGTGAGGACCTACCTGCAGTGTGAGAGGTACTCTGTGGGGCTACTGGATATGACCAAAGAGAAGGAATTCTATGATGAGTGGCCGATTAAACTCGGAGACGTGGAACCGTACAAGGGGCCCAAGACACCTGATGGCAGGGAAATCAACTTCTACAAAATCATTGATTATCTTTTAGAAGCTAAGGAAGAAATCAAAGTCATACCGGGACCGCCTGCAGATCACTGGGCCCTTGTTAGTGGACTCCCCACCTATGTAGCTGAAAATGGCTTTATTTGTAACATGATGAATGTTGCTGCGGATGAATACTTCACATTTCAGAAAACAGCAGCGGATGACACAGGCTTTGTCATCAAGAACGTCTTGTCTCTTCCGATTGTCaacaaaaaagaggaaattgTAGGCATTGCCACTTTCTTCAACCGAAAAGATGGCAAGCCATTTGATGAGCAAGATGAGCAGATcactgagGCCCTTACACAATTCCTGGGATGGTCTGTGCTCAACTGTGACACTTATGATAAGCTGAACAGAATGGAGTGGAAGAAAGAGATTGCTCAAGAGATGGTTATGTATCAGACAAGAGCAACTCTGAATGAGGTCCAGGAAATCCTGAACACAAGGGAGAAGTTCAACAAAGAACCAGAGGAGTGTGATCAAAAGGAAATGTACAAACTCTTGAGGGCAAACATACCTGAAGCTAAGGATGTTGACCTGTTGGAGTTCCACTTCAGTGACTTTCCTCTGTCTGAAGTCGACCTTATCAAGTGTGGTATCCGCTGCTTCTTTGAACTTGGTGTGGTGGAGAAGTTCAAAGTTCCTCCAGAGGTTCTAACCAGATGGATGTACACAGTCAGGAAGGGTTACAGAGACATTACTTACCATAACTGGAGGCATGGCTTCAACGTGGGTCAGACCATGTTCTGTTTACTGCAGACTGGAAAGCTGAGAAAATACTACTCAGACCTTGATGCCTTTGCGATGGTGGCGGCTGCTTTTTGCCATGATATTGACCACAGGGGTACCAACAATCTCTATCAGACAAAGAGTGCTTCACCTTTGGCCAAACTTCATGGGTCCTCTATTCTGGAAAGACACCATCTTGAATACAGCAAGACTCTTATGGCAGAAGAGAACCTAAATATTTTTCAGAGTCTGCAGAAACGCCAGTTTGAAACAGTACAGCATTTACATGATGTCTGCATCATTGCCACTGATCTGGCTTTGTACTTCAAAAAAAGAACAATGTTCCAGAAGATTGTTGATGCCACAGAACCAATGCCAGATGAAAAGGAAGCCATTAACTTTGTTGCCAACAATCCCGTTAGGAAAGAAATCATCATGGCAATGATGATGACAGGCTGTGACCTGTCTGCTATCACAAAACCATGGGAGGTCCAAAGCAAGGTGGCTCTGATGGTggctgctgaattctgggagCAGGGAGACCTAGAGAGGACTGTACTTGAACAAGAACCTATTCCCATGATGGACAGGAAGAAGGCAGATGAGCTGCCCAAGATGCAGTGTGGCTTCATTGATTTTGTCTGCTCATTCGTGTACAAGGAATTTGCAAGATTCCATAAGGAGATCACTCCCATGTTTGATGGTCTGAACAACAACAGAGCCCACTGGAAAGAGCTGGCTGATGCATATCAAGCCAAACTAGATGCCATTgagaatgaaaagaagaaacaggAGGACAAAAAAGTACCAGAAGTTACTGAAGGAGGGAAGTCTAAAACATGcaccatattttaaaaagaaccaTTGGACAAAGAGCCTGACCAACCAATTACACGTGACAGCAGGTGGAAGGTCTTTTTGGACCTCAGGATTCAccatttttggttgtttttccctttctttaattctg

Function

symbol description
pde6c Predicted to enable 3',5'-cyclic-nucleotide phosphodiesterase activity. Acts upstream of or within embryonic retina morphogenesis in camera-type eye; photoreceptor cell maintenance; and visual perception. Is expressed in head and visual system. Used to study retinal degeneration. Human ortholog(s) of this gene implicated in cone-rod dystrophy. Orthologous to human PDE6C (phosphodiesterase 6C).

NR:

description
cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha' isoform X1

GO:

id name namespace
GO:0008152 metabolic process biological_process
GO:0045494 photoreceptor cell maintenance biological_process
GO:0007165 signal transduction biological_process
GO:0060059 embryonic retina morphogenesis in camera-type eye biological_process
GO:0046872 metal ion binding molecular_function
GO:0004114 3',5'-cyclic-nucleotide phosphodiesterase activity molecular_function

KEGG:

id description
K13757 PDE6C; cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha'

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026915427.2 True 2824 mRNA 0.44 22 6273566 6283915

Neighbor

gene id symbol gene type direction distance location
cep55l cep55 coding upstream 5332 6261670 ~ 6268234 (+)
prrt2 LOC108273486 coding upstream 13605 6253948 ~ 6259961 (+)
kif22 kif22,LOC107654032,LOC107664627 coding upstream 21567 6241543 ~ 6251999 (+)
trnas-gcu_4 NA coding upstream 43263 6230222 ~ 6230303 (+)
trnas-gcu_3 NA coding upstream 48381 6225104 ~ 6225185 (+)
lgi1b lgi1,lgi1b,LOC107664615,LOC107743957,LOC107598600,LOC107654035,LOC107708938 coding downstream 18463 6302378 ~ 6310386 (+)
slc35g1 slc35g1,si:ch211-197g18.2,LOC107664634,LOC107664593 coding downstream 26990 6310905 ~ 6320106 (+)
plce1 plce1,LOC107743958 coding downstream 46562 6330477 ~ 6416809 (+)
ace ace,LOC107664635,LOC107653924 coding downstream 242318 6526233 ~ 6546253 (+)
dlx3b dlx3 coding downstream 334736 6618651 ~ 6622647 (+)
G191719 NA non-coding upstream 2681 6268524 ~ 6270885 (+)
G191711 NA non-coding upstream 56472 6215273 ~ 6217094 (+)
G191595 NA non-coding upstream 218361 6001068 ~ 6055205 (+)
G191591 NA non-coding upstream 324980 5946225 ~ 5948586 (+)
G191588 NA non-coding upstream 332719 5940621 ~ 5940847 (+)
G191866 NA non-coding downstream 176896 6460811 ~ 6461014 (+)
G191868 NA non-coding downstream 179474 6463389 ~ 6473466 (+)
G192029 NA non-coding downstream 412817 6696732 ~ 6696970 (+)
G192043 NA non-coding downstream 494249 6778164 ~ 6785596 (+)
G192394 NA non-coding downstream 1115428 7399343 ~ 7399628 (+)
G191581 NA other upstream 290329 5969743 ~ 5983237 (+)
LOC113527671 LOC108441166,LOC108273636 other upstream 532661 5730154 ~ 5740905 (+)
LOC113527051 LOC108274342,LOC108274341,LOC108425932 other upstream 933003 5330042 ~ 5340563 (+)
gngt2b NA other upstream 968657 5303077 ~ 5304909 (+)
G190865 NA other upstream 1434197 4755097 ~ 4839369 (+)
LOC113527389 NA other downstream 441406 6725321 ~ 6728391 (+)
asah2 asah2,LOC107598643 other downstream 538825 6822740 ~ 6836383 (+)
tfam tfam other downstream 1144630 7428545 ~ 7436372 (+)
G192484 ank3 other downstream 1322066 7605981 ~ 7628111 (+)
LOC113527534 dnah9 other downstream 2984578 9268493 ~ 9357961 (+)

Expression


Co-expression Network