XLOC_000110 (cacng3a)


Basic Information

Item Value
gene id XLOC_000110
gene name cacng3a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 9082417 ~ 9091935 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00000204
ATGAGGGTGTGTAACCGTGGAGTGCAGATGCTCCTCACCACGGCGGGGGCTTTCGCGGCCTTCAGCCTAATGACCATCGCGGTGGGCACCGATTACTGGCTGTACTCGCGCGGAGTCTGCAGGACCAAGAGCGTCAACGACAACGACACAAACCGCAAGAATGAGGAGGTGCTGACGCATTCAGGACTCTGGAGACAGTGCTGCATGGAAGGCATATTTAAGGGCGTCTGTAAAAACATCGACCATTTTCCAGAGGACGCGGATTATGAACAAGATGCTGCGGAATATCTGTTGCGTGCTGTGCGCGCTTCTAGTCTCTTCCCTATAATGAGTGTGGGTCTGCTGTTCATTGGTGGAGTGTGTGTCGCTGCCAGCGAGTTTTACAAGAGCAGACACAACGTCATCCTCAGCGCTGGGATCTTTTTTGTCTCAGCTGGCCTCAGCAACATCATTGGCATTATTGTGTACATCTCCTCCAGCGCCGGCGACCCCAACCAGAGCGAGTCCAAGCGCAGCCACTGGTACGGCTGGAGCTTCTACTGCGGTGCTCTTTCCTTCATCATAGCGGAGACGGTGGGCGTCCTGACCGTGCACCTGTTCATCGACACGCACCGAGTGCTCAGAGCGCGGGCCCATCGCTCGCTACAAACCAGCACGCATTCACTACAGCATCGCCGCTCCTTCAGCTACCGCTCGCGCTACCGCTGGAGGCAAGGCCCAAACCGCTCATCTGACTCCCGGTCGCGTGAACCCTCTCCCGCCCGTCAGGGGAACGACCTCGGCCTGTACGCGCTGGGACGAACACTTCCACCATCAGCTGCTCACCCACTCGCGCACAACTCCCTCAGCTCTAGCCACGGCTTCGCACACTTTCATAACTCTGTCATTGCTAATAACAGCTTTGCTAACCCTCAAACATTCCCAATG
>TCONS_00000205
gttcctatttgtttcctattactgtagtattaaattactacagtattaaatgtgggaaatcattaattaataggttattagaaaattaagctaataaacactattaaatcgcttgagtaaaatattaatatagtgttatacatttgttacatgtaaaaagatttttattacatataatgtattattgcctatattaacttgctacTATTTCCTTCATCATAgattaatccattatataaataaaacctgtccaaatgagatcattcagcaaggccagcaaacgagtatctgccttattattgtcagataataatgactgatcagctataatgactggttaaaaactgttcactctattatattgaatggcgatcggaaacacTGCTCCCCATTCTGCCGTCTCaatcgcaatatttgtgaaataaagtaaagtaaacactattgtttattgtgtacaatatttattaatcatatatatcaaaatatatcgatgacgatgtccaaaaagacgttataactttaacatccgtcgtaaccatatatggtttgcctagattgtgtgtcctagattgtgtgtgcctaaaacgtgtgtggttctgcgggcttgcagctggatattattggacatacttgcaggtgtgttgaggaaagttggagctaaaatctgcaggagtttggacacccctggtctactgTAACTTCATTATTTGCACAGTAGGCTCAGTTAAATCACTACAAATACTACATATTAGAGAATTTGTAAATATGAAAACACTCAATgctatgttgttgttgtgtttgtgtgtgcgtcagGTGCTGTGCGCGCTTCTAGTCTCTTCCCTATAATGAGTGTGGGTCTGCTGTTCATTGGTGGAGTGTGTGTCGCTGCCAGCGAGTTTTACAAGAGCAGACACAACGTCATCCTCAGCGCTGGGATCTTTTTTGTCTCAGCTGGCCTCAGCAACATCATTGGCATTATTGTGTACATCTCCTCCAGCGCCGGCGACCCCAACCAGAGCGAGTCCAAGCGCAGCCACTGGTACGGCTGGAGCTTCTACTGCGGTGCTCTTTCCTTCATCATAGCGGAGACGGTGGGCGTCCTGACCGTGCACCTGTTCATCGACACGCACCGAGTGCTCAGAGCGCGGGCCCATCGCTCGCTACAAACCAGCACGCATTCACTACAGCATCGCCGCTCCTTCAGCTACCGCTCGCGCTACCGCTGGAGGCAAGGCCCAAACCGCTCATCTGACTCCCGGTCGCGTGAACCCTCTCCCGCCCGTCAGGGGAACGACCTCGGCCTGTACGCGCTGGGACGAACACTTCCACCATCAGCTGCTCACCCACTCGCGCACAACTCCCTCAGCTCTAGCCACGGCTTCGCACACTTTCATAACTCTGTCATTGCTAATAACAGCTTTGCTAACCCTCAAACATTCCCAATGCAGAACTCTGTGAAGTCAGAAAGAGGGCTTCCGCACATACAGAACTCGCTGGGTCCAGAGAAAGGCTTTGTGGGTCCTAATGCGCAAAATTCAGTCAAGGCGGAAAACGGAGTCTTGTTGTCGCAGAACTATAAGCGCAACTCAGTAAGTACCGGTAAAAGTGTAGCGCATCTGCCGAATTCGGGGAATGATGTTGCACACATGCAAAACTCTTTTAAAGAGTCATTGTTTGTGCCTCAAAGTGGCACTGCGACAAGAAGAACAACACCAGTGTGA

Function

symbol description
cacng3a Predicted to enable channel regulator activity and voltage-gated calcium channel activity. Predicted to be involved in several processes, including neurotransmitter receptor internalization; neurotransmitter receptor transport, postsynaptic endosome to lysosome; and postsynaptic neurotransmitter receptor diffusion trapping. Predicted to act upstream of or within calcium ion transmembrane transport and regulation of ion transmembrane transport. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be part of AMPA glutamate receptor complex. Predicted to be active in postsynaptic density membrane. Human ortholog(s) of this gene implicated in childhood absence epilepsy and macular degeneration. Orthologous to human CACNG3 (calcium voltage-gated channel auxiliary subunit gamma 3).

GO:

id name namespace
GO:0051968 positive regulation of synaptic transmission, glutamatergic biological_process
GO:0019226 transmission of nerve impulse biological_process
GO:0034765 regulation of ion transmembrane transport biological_process
GO:0070588 calcium ion transmembrane transport biological_process
GO:0098943 neurotransmitter receptor transport, postsynaptic endosome to lysosome biological_process
GO:0098970 postsynaptic neurotransmitter receptor diffusion trapping biological_process
GO:2000311 regulation of AMPA receptor activity biological_process
GO:0006811 ion transport biological_process
GO:0006816 calcium ion transport biological_process
GO:0099590 neurotransmitter receptor internalization biological_process
GO:0098839 postsynaptic density membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0032281 AMPA glutamate receptor complex cellular_component
GO:0005244 voltage-gated ion channel activity molecular_function
GO:0005245 voltage-gated calcium channel activity molecular_function
GO:0016247 channel regulator activity molecular_function
GO:0005262 calcium channel activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-090312-124 Predicted to enable channel regulator activity and voltage-gated calcium channel activity. Predicted to be involved in several processes, including neurotransmitter receptor internalization; neurotransmitter receptor transport, postsynaptic endosome to lysosome; and postsynaptic neurotransmitter receptor diffusion trapping. Predicted to act upstream of or within calcium ion transmembrane transport and regulation of ion transmembrane transport. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be part of AMPA glutamate receptor complex. Predicted to be active in postsynaptic density membrane. Human ortholog(s) of this gene implicated in childhood absence epilepsy and macular degeneration. Orthologous to human CACNG3 (calcium voltage-gated channel auxiliary subunit gamma 3).

Ensembl:

ensembl_id ENSDARG00000058460

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00000204 False 927 mRNA 0.57 4 9082417 9091659
TCONS_00000205 True 1721 mRNA 0.44 2 9086942 9091935

Neighbor

gene id symbol gene type direction distance location
XLOC_000109 BX004779.3 coding upstream 7938 9071324 ~ 9074479 (+)
XLOC_000108 prkcba coding upstream 17505 9004719 ~ 9064912 (+)
XLOC_000107 tlr2 coding upstream 93913 8984068 ~ 8988504 (+)
XLOC_000106 NA coding upstream 105995 8967479 ~ 8976422 (+)
XLOC_000105 NA coding upstream 116478 8950874 ~ 8965939 (+)
XLOC_000111 NA coding downstream 37451 9129386 ~ 9132490 (+)
XLOC_000112 rasd3 coding downstream 53023 9144958 ~ 9145896 (+)
XLOC_000113 plk1 coding downstream 61206 9153141 ~ 9161843 (+)
XLOC_000114 chtf18 coding downstream 107096 9199031 ~ 9227204 (+)
XLOC_000115 chtf18 coding downstream 126713 9218648 ~ 9221616 (+)
XLOC_000100 NA non-coding upstream 491781 8587230 ~ 8590636 (+)
XLOC_000098 AL928650.2 non-coding upstream 505143 8575307 ~ 8577274 (+)
XLOC_000097 NA non-coding upstream 507360 8573777 ~ 8575057 (+)
XLOC_000116 BX323038.1 non-coding downstream 185911 9277846 ~ 9285351 (+)
XLOC_000120 NA non-coding downstream 795020 9886955 ~ 9914630 (+)
XLOC_000121 NA non-coding downstream 854729 9946664 ~ 9951873 (+)
XLOC_000133 AL935188.1 non-coding downstream 1271785 10363720 ~ 10363851 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000300_00740073_00744573 NA coding CI01000300 null 739096 ~ 746407 (+)