pde6c (pde6c,LOC107557364,LOC107598595)


Basic Information

Item Value
gene id pde6c
gene name pde6c,LOC107557364,LOC107598595
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035900.1
NCBI id CM008303.1
chromosome length 25652880
location 21055568 ~ 21077901 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_022669333.1
CCACTGTACAGTCTGCTAGCTTGCCAGAGGAGATCAGGCGGCTTTCTTCTGTAGTCGGTACGGCTCTGCAGCGGAGGATGCACCTGGCTGAGGGAGAAGGCCACTGAGCTGCCGGTGCTTTCTTTCAGTCTTTCTGTGGGTGatgcatttctgagtggaacaCCACCTTGAGTACCCGAGGAACAGTACACACCACTTTCAGACACAATGGCGGACAAGGACAGTGTGGAAAAATACCTGGAGAACAATCCCCAGTTTGCCAAAGAGTATTTTGACAAGAAGATACGAGCGGAGGCCATCACAGCTGCTTTCACCGAAACCATTGAAATCAAAGATGCGTCTTCGTTTAAAGAGGCTTCTCAGATCCAGGAGGCCACCATTATCTTCGACCTGATCAAGGAGCTGCAGTCCGACTCAGAAATGGAGAAGAGCATGCACAAAGTCCTGCAACGGATATGCTTGCTGATCAGCGCAGACCGCTGCAGCTACTTCACAATGCGAGCTAGAAACGGAATCGCTGAACTGGCCACTTGCCTTTTCGATATCACCCCCACCTCCAAATTTGAGAACAACTTCGTAAACCCACTGGCCGAGATCGTCTTCCCCACTGATGTCGGCATAGTCGGCCAGATAATCACCAACAAAAAATCAGTTAACATTCCAGACGTGAAGCAGaattcCAAATTCAGTGACTTTGTGGACAAGCAGACAGGATACACAACCAAAAACATTCTGGCTGCCCCAATTATGTTTGGGAAAGATCCGCTTGGAGTCATTATGGCGTTAAACAAAGTAGGAGGCACGGAATTCAGCAAAGCCGATGAGGAGCTCTTCACTAAGTACCTACATGTTGCCTCAGTCATTGCTCTTCAGCATCACACCAATTACATGTGGAATGTGGAATTGAGAAGGAGTCAGGTTCTTCTCTGGTCTGCTAGCAAAGTGTTTGAGGAATTGACAGACATTGAGCGACAGTTCCACAAAGCTCTGTACACCGTCAGGACCTACCTCCAGTGTGAGAGGTACTCTGTTGGGCTGCTGGACATGACCAAAGAGAAGGAATTCTATGACGAGTGGCCGATTAAATTGGGTGAAGTGGAACCTTACAAGGGACCCAAGACGCCTGATGGCAGAGAAGTCAACTTCTACAAAATCATTGATTATCTCTTAGAGGGCAAAGAAGAGATCAAAGTTATACCGGGACCTCCTGCAGACCACTGGGCTCTTGTTAGTGGCCTACCGACTTATGTAGCTGAAAACGGCTTTATTTGTAACATGATGAACGTTGCTGCTGATGATTATTTCACGTTCCAGAAAGAAGCTGTGGATGAGACTGGCTTCATCATCAAGAATGTGTTGTCCCTCCCCATTGTCAACAAAAAGGAAGAAATTGTGGGCATTGCCACTTTCTTCAACCGGAAAGATGGCAAACCGTTCGATGAGCAGGACGAGCAGATCACTGAAGCCCTCACACAGTTCCTGGGATGGTCAGTGCTGAACTGCGACACGTATGATAAACTGAACAAAACGGAATGGAAGAGGGAGATCGCGCAGGAGATGGTGCTGTACCAAACTAGAGCCAGTCTAGATCAGGTCCAGGAGATTCTGAACACTAGGGAGAAGTTCGATGCAGAACCGGCGGACTGTGATCAAAAAGAAATGTACAAACTTTTGAGATCAAACATACCTGAAGCCAAGGATGTGGACTTGCTGGAGTTCAGCTTCAGCGACTTCCCTCTATCCGAGTTTGACCTGATCAAGTGTGGTATCCGCTGCTTCTTTGAACTGGGTGTGGTGGAGAAGTTCAAAGTGCCCCCGGAGATTCTGACCAGATGGATGTACACGGTCAGGAAGGGCTACAGAGACATCACATACCATAACTGGAGGCATGGCTTCAATGTGGGCCAGACTATGTTCTGTTTACTGCAGACTGGAAGGCTGAGGAAATACTACTCAGATCTCGATGCCTTTGCAATGGTCGCAGCTGCGTTCTGTCACGATATCGACCACAGGGGTACCAACAATCTCTACCAGACTAAGAGTGCAGCACCTTTGGCTAGGCTCCATGGCTCTTCCATCTTGGAAAGACACCATCTCGAGTACAGCAAGACTCTGATGGGAGAAGAGAACCTAAACATTTTCCAGACTCTACAAAAACGGCAGTTTGAAACTGTGCAGCATTTACATGACGTTTGCATCATTGCGACAGATTTGGCTTTGTACTTCAAGAAACGAACAATGTTCCAGAAGATTGTCGACGCCACAGAACCAATGACGGATGAAAAAGAAGCAATCAACTATGTGTCCAACAACCCTATAAGAAAGGAAATCATCATGGCAATGATGATGACAGGCTGTGACTTGTCTGCCATTACAAAGCCATGGGAGGTCCAAAGCAAGGTGGCTTTAATGGTAGCTGCTGAGTTCTGGGAGCAGGGAGACCTGGAGAGGGAGGTGCTTCAGCAGGAACCCATTCCCATGATGGACAGGAACAAGAAGGATGAGCTGCCCAAAATGCAGTGCGGTTTCATTGATTTCGTCTGTTCATTTGTTTACAAGGAATTTTCAAGGTTCCATAAGGAGATCACACCAATGTTTGATGGACTGAACAACAACAGGACCCACTGGAAAGAGCTGGCTGATGTTTATCAAGCCAAACTAGATGCCATTGCTAATGAGAAGAAGAAACTAGAGGAAGCAGCAGAGAAAAAGgGAACAGAGAATGGAGAAGGAGGAAAGTCTAAAACCTGCACCATTTTTTAAAGAGCGACGTCGGGCTGAGAGCTCGATCAACCTGTTGCAAGCGACAGCCGGTGGAAGATGCTCCGTTTTGGATCATCACCTCTGCCAACTGTCTCGCCAGCTTTCCCCATCTCTCGTTCTGTGATATGCAAGCAAACATCAATCAGTCCTTTCATGGAGGAAGGATTTGACTCTTCACTGCTCCTCTTGCGGAAGACGGAAAACTTGAACAACACAcgtaaaaagctaaaaaa

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_022669333.1 True 2996 mRNA 0.47 22 21055568 21077901

Neighbor

gene id symbol gene type direction distance location
cep55 NA coding upstream 11678 21031902 ~ 21043890 (+)
emc9 emc9,LOC106579550,LOC106590414 coding upstream 53557 20998115 ~ 21002011 (+)
LOC103033426 NA coding upstream 58911 20990981 ~ 20996657 (+)
med9 med9,LOC108412951 coding upstream 189783 20862649 ~ 20865785 (+)
nt5m nt5m,LOC107719901 coding upstream 244426 20800120 ~ 20811142 (+)
slc35g1 si:ch211-197g18.2,slc35g1,LOC107664634,LOC107664593,LOC107598601 coding downstream 64685 21142586 ~ 21144194 (+)
LOC103044640 NA coding downstream 274290 21352191 ~ 21352892 (+)
ace ace,LOC107653924,LOC107664635 coding downstream 352571 21430472 ~ 21474118 (+)
dlx3 dlx3,dlx3b,LOC107739764,LOC107557343,LOC107653950,LOC107598678,LOC107708903 coding downstream 547700 21625601 ~ 21629176 (+)
LOC111192390 NA coding downstream 746478 21824379 ~ 21828127 (+)
G38062 NA non-coding upstream 73805 20903077 ~ 20981763 (+)
G38059 NA non-coding upstream 180292 20874796 ~ 20875276 (+)
G38010 cops3 non-coding upstream 265442 20783931 ~ 20790126 (+)
G37972 NA non-coding upstream 509931 20445849 ~ 20545637 (+)
G38093 NA non-coding downstream 53729 21131630 ~ 21139901 (+)
G38101 NA non-coding downstream 194231 21272132 ~ 21272572 (+)
G38106 NA non-coding downstream 239202 21317103 ~ 21317345 (+)
G38099 NA non-coding downstream 243938 21321839 ~ 21322611 (+)
G38117 NA non-coding downstream 281238 21359139 ~ 21359560 (+)
G38079 kif22,LOC107664627 other upstream 24771 21019169 ~ 21030797 (+)
G37943 NA other upstream 897229 20155728 ~ 20158339 (+)
LOC103039215 ubtd1b,ubtd1,LOC108437310,LOC107720068 other upstream 1544127 19488899 ~ 19511441 (+)
G37812 mms19,LOC106578995 other upstream 1570653 19481056 ~ 19484915 (+)
G37749 NA other upstream 1723907 19329368 ~ 19331661 (+)
lgi1 lgi1,lgi1b,LOC107743957,LOC107664615,LOC107598600,LOC107654035,LOC107708938 other downstream 31179 21109080 ~ 21128764 (+)
plce1 plce1,LOC107743958 other downstream 88667 21166568 ~ 21296823 (+)
trnar-ccu_1 NA other downstream 2669568 23747469 ~ 23747541 (+)
trnar-ccu_2 NA other downstream 2669670 23747571 ~ 23747643 (+)
trnar-ccu_3 NA other downstream 2669772 23747673 ~ 23747745 (+)

Expression


Co-expression Network