CI01000047_03115498_03127047 (PDE6C)


Basic Information

Item Value
gene id CI01000047_03115498_03127047
gene name PDE6C
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000047
NCBI id null
chromosome length 7523058
location 3115187 ~ 3128105 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000047_03115498_03127047.mRNA
AGCAGGAAATCATTAATTCAGTATCCGGTGTCAATACGAAGTACAAAGAAAGTGTAAATCGCCAGTTTACACTTTCTTCGTAACTTGAATCCGGAAGGCAGTCTGGCGGAAGCTAGATATTTTAGTTTATGACTTGTTAAATATGGATTTTTTTTTACACAAATGCATCACTTCACTTCAGAAGGCCTTTATTAACCTCCCAGAGCTGTGTGGAGTACATGTTTATGATGGATGGATGTGGATGGAGACACTTTCTTCAGCTCATACTCATGACCCCTGTTCACTGCCATTATAAAGCTCGGATGCATCAGGATATTTATTAAAATATCTACCTTTGTGTTCATCAGAAAGAAGAAAGTCATTTAAACCTTGGATAACTTGAGGGTGAGTAAAGCTTGGGGTAATTTTCATTTGAAAGTGAACTAATCCTTTAACTCAATTTTTTTATTTCAATGAACTCAAAATTTTAAGGCAACCAGGTAACTTACTTTTTAAAGTTAAACCAACAGCTGTTTTTTACAGTGTAGTGCTGAAATTACTTGAAATTTCAAATCAACTACCCATTTACCCATTTGGTGAAACATTTTTCCACAAGCTTTTTATTTTAGCACTAATGTGAAGATCTAATGTGAAAACTTCTAGCCCAATGAACACACACACGCTGGGGATGGTAGTGTATTAGATCAGAAACAGCATCAGTCTAATCGACAGACCGATGTGACAAATATTATGTCATGTGCCGACACTTTCTCTGCGGGAGAAAACAGGGCCGTTTGGCTCTGACTGGATTGTCTAACATAAAATGATCAGGGTGGGGATTTGCAGGTTAAGAAAGCTTAGGGGTTTAATGTCATGACGTCACTTTAATTAGCGGCCACTTTGATCCCTTCAGCCTGTAAGCCACTATTCTCTGGCAGCCTGTCGGAGGAGACCAGCACTGATCTCTGCACTGGAGGATGCACCTGTCTGAAGGAGGCCACTGAGAAGCTTCACTTTTCATCTTGACATCCCACAAGTAATGAATCTGTGAGCGGACAAGGAGAGAAGCGCACTTCAAAATGGCAGACAAGGATAGTGTGGAAAAGTACTTGGAGAATAACCCACAGTTCGCCAAAGAGTATTTTGACAAGAATATACGATGCGAGGCCATCGCCGCCGCTTTTGCCGAGAAACTTGACATCAAAGATCCGGCCTCGTTCAAGGATGTCAGCCAAATCCAGGAGGCCAACATCATCTTTGACATGATCACAGAAATGCATTCGCAGCCTATTATGGAAAAGGCCATGCACAAGGTCCTGCAGAGGATATGTATGCTGGTGAACGCCGACCGCTGCAGCTATTTCATATGCCGAGCTAGAAATGGCATCCCTGAGCTCGCTACATCTCTTTTCGATGTCACCCCTACCTCGAAATACGAGGCCAACCTGGTCAACCCTCAGTCTGAAATTGTGTTCCCTACTGACATGGGCATAGTTGGTCAAATAGCAACCACCAAAAAACCAGTTAATATTCCTGATGTCAAACAGAATCCCAGGTTCAGTGACTTTGTGGACAAGCAGACAGGATACACGACTAAAAACATGCTGGCTGCCCCCCTCATGAGCGGCAAAGACGTACTTGGTGTGGTTATGGCAATAAACAAAGTAGGAGGAAATGAATTCGCCAAAGCAGACGAAGACCTCTTCACCAAGTACATCACTTTCGCCACAGTCATCGCCCTACAGCATTACACTGCATACATGTATAATGTGGAGTCTAGAAGAAGCCAGGTTCTTCTATGGTCTGCGAGCAAAGTGTTTGAAGAGTTGACAGACATTGAGCGACAGTTTCACAAGGCCCTGTACACCGTCAGGACCTACCTCCAGTGTGAGAGGTACTCTGTCGGCCTCCTGGACATGACCAAAGAAAAGGAGTTCTACGACGAGTGGCCGATTAAATTGGGAGATGTGGAGCCGTACAAAGGCCCAAAGACACCTGATGGCAGGGAAATCATCTTCTACAAGATCATTGATTATCTGCTAGAAAACAAAGAAGAGATCAAAGTCATACCGACCCCTCCTGTTGACCACTGGGCACTTGTTAGCGGCCTCCCCACCTACGTGGCTGAAAATGGCTTTATTTGTAACATGATGAATGTTGCTGCTGATGATTACTTCACATTCCAGAAAGAAGCTGTGGACGAGTCGGGTTTCGTCATCAAAAATGTCCTGTCCCTTCCCATTGTGAACAAGAAAGAGGAGATTGTGGGTATTGCCACTTTCTTCAATCGAAAAGACGGAAAGCCGTTTGACGAGCAGGATGAACAAATTACTGAAGCCCTAACACAGTTTTTAGGATGGTCTGTACTGAATTGTGACACATATGACAAACTGAACCGGATGGAGTGGAAAAAAGAAATTGCACAGGAAATGGTCATGTATCAGACCAAAGCCACTCCAGCTGAAGTCCAACAGATTCTGAACACCAAGGAGAAGTTTGACCAAAACCCTGAGGACTGCGATCAGAAAGAAATGTACAAACTCTTGAGAGCCAACATTCCAGAAGCCAAAGACGTCGATCTGCTAGAATTTAGTTTTAGTGACTTTCCTCTCTCTGAGGTTGACCTTATCAAGTGTGGCATTCGCTGTTTCTTTGAACTCGGAGTGGTGGAAAAGTTTAAAGTGCCAGCAGAGGTCCTGACTAGATGGATGTACACCGTACGAAAGGGCTACAGAGATATCACCTACCATAACTGGAGGCATGGGTTTAATGTGGGCCAGACCATGTTCTGTCTTCTGCAAACCGGAAAACTGAGAAGGTACTACACAGACCTTGATGCCTTTGCGATGGTAGCGGCTGCATTCTGTCACGATATTGACCACAGGGGTACCAACAATCTCTACCAGACAAAGAGCGGATCGCCTCTGGCGAAGCTTCATGGATCCTCCATCTTGGAAAGGCACCATCTTGAATACAGCAAGACACTGATGGCAGAAGAGAATGTTAATATTTTCCAAAGTCTGCAGAAACGCCAGTTTGAGAATGTCCAGCACTTGCATGATGTCTGCATCATTGCGACTGACCTGGCCTTGTATTTCAAAAAAAGGACCATGTTCCAGAAGATTGTTGATGCCACCGAACCAATGGCTGATGAGAAGGAAGCGATCGCCTATGTGGCCAACAACCCCATTAGGAAGGAAATCATTATGGCAATGATGATGACCGGTTGCGACTTGTCTGCCATTACCAAACCATGGGAAGTCCAGAGCAAAGTGGCTCTCATGGTGGCAGCTGAATTCTGGGAGCAGGGAGATCTGGAAAGGACTGTGCTAGATCAACAACCCATTCCCATGATGGACAGAAACAAGTCGGATGAACTTCCGAAGATGCAGTGTGGTTTCATTGACTTTGTGTGCTCGTTTGTGTACAAGGAATTTTCAAGGTTCCACAAAGAGATCACTCCCATGTTTGATGGCCTGAACAACAACAGGGTCCACTGGAAGGAACTGGCTGATATTTACCAAGCAAAAGTAGACGCTTTGGAGAACGAACGGAAGCGACTAGAAGAGGAGCAGGCTAAAAAAGCTGGTGAGGATGGAGGCGGAGAGGGAGGAAAATCCAAAACCTGCACCATATTTTAAACATCATCCACCAGAAATTCAGAGCCACAGAGAAGTCTGGGCCAGCTGGCAAACATGTAGAGGGAGGTGAAATGTGCTCCTAGGATCACTACATTTTCACCAGCTTCCTCCATTTTCTGTCTCATTTCCTCGGATGTACCTTCTCCAAGTGAACACGTAGGCATTCACCAGAAATGGAAGAACTGAACCTGTCAGATTGTCTTTCTGATGGGGTGCCAGCCTAGAGCACCAGCTAATTTTCACCATATAGACAATTTCATGCTTGTTCCTAATCGTTGATTTCACCTTGACTGTACCTTTTCACATATAAA

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).

GO:

id name namespace
GO:0052715 mannosyl-diinositol phosphorylceramide phospholipase 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
CI01000047_03115498_03127047.mRNA True 3931 mRNA 0.44 22 3115187 3128105

Neighbor

gene id symbol gene type direction distance location
CI01000047_03087382_03094014 LGI1B coding downstream 19170 3087080 ~ 3096017 (-)
CI01000047_03085017_03085558 NA coding downstream 29496 3084995 ~ 3085691 (-)
CI01000047_03080182_03082134 SLC35G1 coding downstream 33053 3080086 ~ 3082134 (-)
CI01000047_03002349_03064708 PLCE1 coding downstream 49500 3002349 ~ 3065687 (-)
CI01000047_02939538_02940848 DRD6B coding downstream 172769 2939493 ~ 2942418 (-)
CI01000047_03136341_03145907 CEP55L coding upstream 7807 3135912 ~ 3145907 (-)
CI01000047_03149971_03159412 PRRT2 coding upstream 21855 3149960 ~ 3159412 (-)
CI01000047_03163127_03175326 KIF22 coding upstream 34761 3162866 ~ 3175326 (-)
CI01000047_03177108_03216092 ARHGAP27 coding upstream 48978 3177083 ~ 3216132 (-)
CI01000047_03223945_03241971 NA coding upstream 95518 3223623 ~ 3242716 (-)
G202757 NA non-coding downstream 1209 3113282 ~ 3113978 (-)
G202792 NA non-coding downstream 15067 3097841 ~ 3100120 (-)
G202755 NA non-coding downstream 26487 3077993 ~ 3088700 (-)
G202747 NA non-coding downstream 142226 2966977 ~ 2972961 (-)
G202740 NA non-coding downstream 148588 2965854 ~ 2966599 (-)
G202733 NA non-coding upstream 4208 3132313 ~ 3133652 (-)
G202847 NA non-coding upstream 204061 3332166 ~ 3334561 (-)
G202844 NA non-coding upstream 204745 3332850 ~ 3432629 (-)
G202842 NA non-coding upstream 271744 3399849 ~ 3407492 (-)
G202869 NA non-coding upstream 312722 3440827 ~ 3445116 (-)
CI01000047_01708628_01744282 BICC1B, BICC1 other downstream 1399670 1706068 ~ 1744282 (-)
G200472 NA other downstream 2280716 833941 ~ 834471 (-)
CI01000047_00519408_00522108 PYYB other downstream 2592945 519108 ~ 522245 (-)
G200299 NA other downstream 2847152 267530 ~ 268035 (-)
G202944 NA other upstream 669698 3985342 ~ 3986402 (-)
CI01000047_04213574_04213976 NA other upstream 1085304 4213409 ~ 4214085 (-)
CI01000047_04285605_04286644 COA3A other upstream 1150803 4285227 ~ 4286694 (-)
CI01000047_04575184_04576337 GNGT2B, GNGT2 other upstream 1446230 4574335 ~ 4576342 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_004499 pde6c coding NC_007123.7 CM002896.2 5129245 ~ 5154099 (+)
bowfin (Amia calva) AMCG00002892 NA coding CM030139.1 CM030139.1 5676170 ~ 5689692 (+)