copa (copa,LOC106600386)


Basic Information

Item Value
gene id copa
gene name copa,LOC106600386
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035912.1
NCBI id CM008315.1
chromosome length 41032606
location 10172944 ~ 10187687 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_007234367.3
GCGCTGGAGCTGAGTGTGAGTGAGCGGGTTTGTGTAGACGTGTCAGCTCCGGAAGCGCAGCACCTCCAGCAGCCCGCTGCTGTTGGATCAGACCGGCTACGACACCGGAGCTTTAGCGGCGATTCCATTATTTTACTGGAGTGAACCGACCCTCAGCGAGGCTGCAGAGTCCGTCCGACATGCTGACCAAGTTCGAGACCAAGTCCGCCCGAGTGAAGGGGCTGAGTTTCCATCCAAAGCGGCCCTGGATCCTCGCCAGTTTGCACAATGGGGTCATTCAGCTTTGGGACTACCGCATGTGCACCCTCATTGACAAGTTTGACGAACACGATGGGCCAGTCAGAGGGATTGACTTCCACAAACAGCAGCCTCTGTTTGTTTCCGGAGGGGACGACTACAAAATTAAGGTGTGGAATTATAAACTTCGCCGCTGTCTTTTCACCCTGCTGGGTCATCTGGACTACATCCGCACCACCTTCTTCCACCATGAGTACCCATGGATCCTGAGTGCCTCAGATGATCAGACCATCCGCATCTGGAACTGGCAATCCAGGActtgtgtgtgtgTTCTGACTGGCCATAATCATTATGTGATGTGCGCTCAGTTCCACCCGTCGGAGGACCTAGTGGTGTCGGCCAGTTTGGACCAGACCGTGCGCGTGTGGGATATTTCCGGTTTGAGGAAGAAGAACCTGTCTCCTGGTGCTGTGGAAACAGAAGTTCGTGGCATTACCGGTGTAGATCTGTTTGGTGCCTCTGATGCTGTTGTCAAACACGTCCTTGAGGGTCATGACCGAGGGGTTAACTGGGCAGCATTCCACCCCAGCATGCCCCTCATTGTGTCGGGAGCTGATGATCGGCAGGTGAAGATCTGGAGAATGAAtgAGTCAAAGGCGTGGGAGTTGGACACCTGCAGGGGGCACTACAACAACGTGTCCTGCGCTGTGTTCCACCCTCGGCAGGAGCTGATTCTGTCCAACTCAGAGGATAAGAGCATCCGCGTGTGGGACATGTCCAAAAGGACAGGGGTTCAGACCTTCCGCAGAGACCATGACCGCTTCTGGGTGCTTGGAGCCCACCCCAACCTCAACCTGTTTGCTGCAGgtcatGATAGTGGTATGCTGGTGTTTAAGCTGGAGCGAGAGCGTCCTGCGTACGCAGTGTATGGTAATATGCTTTACTACGTGAAAGACCGCTTCCTGCGTCAACTCGACTTCAACAGCAGCAAAGACACTGCCGTCATGCAGCTGCGCAGTGGTTCTAAGTTTCCCGTGTTCAGTATGTCCTACAACCCTGCGGAGAATGCTGTGCTTCTGTGCACTAGAGCCACCAACCTGGAGAACAGCACATACGACCTGTACTCAATCCCACGAGAGAGCGACTCCCAGAATCCTGATGCTCCAGAGGGAAAGCGATCCTCAGGGCTGACCGCCGTGTGGGTGGCAAGGAATCGCTTTGCTGTTCTGGACCGCATGCACTCGCTGCTGATCAAGAACCTGAAGAATGAGATTGTAAAGAAGGTGCAGGTTCCAAGCTGTGAGGAGATTTTCTACGCTGGGACAGGTTCTCTGCTGCTGCGTGATGCTGATGGAGTCACTTTGTTTGACGTCCAGCAGAAACGCTCCCTGGCCACTGTGAAAATTGCCAAGGTCAAATACGTGGTGTGGAGTGCAGACACCAGCCACGTAGCCCTGCTGGCCAAACATGCCATCATGATCTGTAACAGGAAGCTGGAAAGTCTGTGTAACATTCATGAGAACATCCGCGTGAAGAGCGGCGCTTGGGACGAGAGTGGAGTGTTCATCTACACCACCTCCAACCACATCAAATATGCCCTCACCTCCGGtgATCACGGTATAATCCGCACACTGGATTTGCCCATCTATGTGACCCGTGTAAGGGGGAACAGTGTGTACTGTCTGGACCGTGAGTGCAGACCTCGAGTGCTTAACATCGACCCCACGGAGTATCGCTTTAAACTCGCTCTCGTCAACCGCAAGTATGAAGAGGTGCTGCACATGGTGCGTAACGCTAAGCTGGTGGGACAGTCCATTATTGCCTACCTTCAGAAAAAGGGCTACCCAGAGGTTGCGCTACACTTCGTAAAGGACGAGAAAACACGCTTCAGTCTGGCTCTGGAGTGTGGAAACATTGAGGTGGCGCTGGAAGCAGCAAAGGCCCTAGATgagcggagctgctgggagcgcctAGGCGAGGCTGCTCTACTGCAGGGTCACCACCAGGTGGTGGAGATGTGCTATCAAAGAACCAAAAACTTTGACAAACTCACTTTCCTCTATTTGATCACTGGCAACCTGGCCAAACTAAGGAAGATGATGAAGATTGCTGAGATCAGGAAGGATATGAGTGGTCATTATCAGGGTGCTCTGTATCTGGGAGATGTCAGCGAGAGAGTTCGTATCCTCAAAAACTGTGGGCAGAagtcttTGGCCTATTTGACTGCTGCAACTCATGGCATGGATGAAGAGGCTGAAGCCCTGAAGGAGACCTTTGACCTGGAGAAGGAGATGATTCCAGAGGTGGACCCTAATGCCCAGCTGCTGCAACCTCCTCCCCCCATTAATCCACTGGACACTAACTGGCCCCTGCTCACAGTTTCAAAGGGTTTCTTTGAGGGAGCCATCGCTGCCAAGGGGAGAGCTGGTCAAATGGCGGCTGATCTGGACATGGATGCACCTGGAGGAGAAGGTTGGGGAGAGGATGCTGAACTACACCTGGATGAAGACGGCTTTATGGACGCTCAGGATGGTCTAGGGGATGATGTAGGTGTAGGGAAGGAGGAAGGAGGAGGctgggaggtggaggaggaccTGGACCTGCCCCCAGAACTGGACGTACCTGCTGgtgcaggaggaggagctgaAGGAGAAGGTTTCTTTGTTCCACCTACCAAAGGTGTTAGTCCCACCCAGATGTGGTGTAATAACTCCCAGCTGCCCGTCGATCACATGCTTGCTGGGTCCTTCGAAACTGCCATGCGGTTACTGCATGATCAGGTTGGAGTGGTCCAATTTGGGCCATATAAACAGCTGTTCCTACAGACCTTCTCCCGCGGTCGGACGTGTTATCTGGGTCTGCCGTCACTCCCCTGCCTGCAAGGTAACCCCCAGAGAAACTGGAAGGACTGTGGGCTGAAGGGTGGACTGCCTGCGGTGGGCCTGCGCCTTGCTGACCTCATTGCCCGTCTGCAGCAGTGCTACCAGCTGACCACAGCTGGGCGCTTTGAGGAGGCTGTGGAGCGCTTCAGGGTCATTCTGCTGTCCGTTCCTCTGCTGGTGGTGGACAACAAACAGGAAATCGCAGAGGCTCAGCAGTTGATCACTATTTGCAAAGAGTATATTGTGGGTCTCACCATGGAAACGGAGCGCAAGAAACTACCTAAAGACACACTAGATCAGCAAAAGAGGCTGTGTGAGatggCAGCGTACTTCACCCACTGTAACCTGCAGCCGGTGCACATGGTGCTGGTGTTGCGAACAGCGCTTAATCTCTTCTTCAAACTGCGAAACTTCAAAACAGCAGCAGGTTTCGCACGACGCCTCCTTGAGCTCGGACCCAAACCTGAGGTTGCACAGCAGACACGTAAGATTCTGGCTGCGTGCGAGAAGACCCTGACGGACGCCCACCAGCTTAACTATGACCCCCATAACCCCTTTGATCTTTGTGCTGCATCCTTTACCCCGCTGTACCGTGGACGTCCTGTGGAGAAGTGTCCGCTCTCTGGTGCCTGCTACTGCCCAACGTACAAAGGCCAGGTCTGCCGGGTCACACAGGTGACCGAGATCGGTAAGGACGTAATTGGTCTGCGTATAAGTCCTCTGCAGTTCCGCTGAGAGCAGAGGATGAAcagtttcacacaaacacacacattcttctTGTATTCTCCCGCTGCAGATGACAGAGAGGTGGAATAGAGTGACCTGCTCTTTTTCTTGGTGTAGCTGTTCTTTCAGTCCATCAGTCTGTGTATTTCTGTGCTGTCAGAGCTTAGCTTGAGTCCCAGATGCTCTGAGACCCTCACTCTTAATATACTCTTAATTATATGTTTCATATTGTAATCTGTTTATCTCTTCAAATAATGGAATAAAAGTTCTACAATGAGGATTTTG

Function

symbol description
copa Predicted to enable structural molecule activity. Acts upstream of or within notochord development and somite development. Predicted to be located in Golgi membrane. Predicted to be part of COPI vesicle coat. Is expressed in several structures, including axis; hatching gland; mesoderm; notochord; and pectoral fin. Orthologous to human COPA (COPI coat complex subunit alpha).

NR:

description
PREDICTED: coatomer subunit alpha

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0030903 notochord development biological_process
GO:0030126 COPI vesicle coat cellular_component
GO:0005198 structural molecule activity molecular_function

KEGG:

id description
K05236 COPA, RET1; coatomer subunit alpha

RNA

RNA id representative length rna type GC content exon number start site end site
XM_007234367.3 True 4130 mRNA 0.53 29 10172944 10187687

Neighbor

gene id symbol gene type direction distance location
pex19 pex19,LOC107591335,LOC107659417,LOC107684402 coding upstream 3247 10163810 ~ 10169697 (+)
LOC103041077 slc1a8b,LOC108444332,LOC107591333,LOC107557414,LOC107706395,LOC107738183,LOC105889468 coding upstream 25217 10130895 ~ 10147727 (+)
tmem53 tmem53,LOC107700979,LOC107730786,LOC107733878 coding upstream 268830 9897076 ~ 9904114 (+)
LOC103036973 LOC108430268 coding upstream 284367 9884209 ~ 9888577 (+)
LOC103040652 NA coding upstream 288818 9880166 ~ 9884126 (+)
LOC111194303 NA coding downstream 3124 10190811 ~ 10212330 (+)
LOC111194211 NA coding downstream 13137 10200824 ~ 10201754 (+)
samd7 samd7 coding downstream 31886 10219573 ~ 10234260 (+)
sec62 sec62,LOC107738178,LOC102781860 coding downstream 48035 10235722 ~ 10246002 (+)
gpr160 NA coding downstream 84327 10272014 ~ 10276220 (+)
G140274 NA non-coding upstream 16896 10098168 ~ 10156048 (+)
LOC103034722 NA non-coding upstream 42900 10125320 ~ 10130044 (+)
G140255 NA non-coding upstream 230665 9941028 ~ 9942279 (+)
G140251 NA non-coding upstream 246368 9926309 ~ 9926576 (+)
G140249 NA non-coding upstream 246901 9925133 ~ 9926043 (+)
G140297 NA non-coding downstream 10365 10198052 ~ 10201839 (+)
G140305 NA non-coding downstream 89190 10276877 ~ 10278511 (+)
G140331 NA non-coding downstream 119733 10307420 ~ 10307715 (+)
G140341 prkci,LOC107659412,LOC107558824 non-coding downstream 145141 10332828 ~ 10335069 (+)
G140391 NA non-coding downstream 173304 10360991 ~ 10361377 (+)
G140262 NA other upstream 178878 9993586 ~ 9994066 (+)
G140258 NA other upstream 182648 9989918 ~ 9990296 (+)
G140103 NA other upstream 427589 9743698 ~ 9745355 (+)
G140062 NA other upstream 632134 9539775 ~ 9540810 (+)
LOC103030224 NA other upstream 948963 9220274 ~ 9223981 (+)
G140336 prkci,LOC107659412,LOC107706387,LOC102783124 other downstream 123413 10311100 ~ 10345471 (+)
G140402 NA other downstream 207833 10395520 ~ 10399976 (+)
sppl2b sppl2b,sppl2,LOC107738168,LOC107591351,LOC107668984 other downstream 239579 10427266 ~ 10444540 (+)
G140520 NA other downstream 610858 10798545 ~ 10798891 (+)
G140659 NA other downstream 1192411 11380098 ~ 11383505 (+)

Expression


Co-expression Network