XLOC_016690 (copb2)


Basic Information

Item Value
gene id XLOC_016690
gene name copb2
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007113.7
NCBI id CM002886.2
chromosome length 59640629
location 38997357 ~ 39015130 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00032759
ACTGCATTGAGGAAGTTCCACGTCACATTTGTCTGCTGTGCACAAAACTGCAGCCGTAAAAACACATCAGACTCTCACTGTGGATGATATAAAAACATTGCAGCTGAAGGAGACCAAACCCAACAAACGCAAAAATGCCTCTGAGGCTGGACATCAAGCGCAAACTCACGGCTCGATCTGACCGTGTCAAAAGCGTAGACCTTCATCCGTCCGAACCATGGATGCTGGCCAGTTTGTACAATGGCAGTGTCTGTGTGTGGAACCATGAAACACAAACTCTGGTTAAGACTTTTGAGGTTTGTGACCTTCCGGTGAGAGCTTCCAAGTTTGTTGCCAGGAAAAATTGGGTCATAACTGGCGCTGATGACATGCAAATCCGAGTTTTCAACTACAACACTCTAGAGCGAGTACACATGTTTGAGGCCCATTCAGATTATATTCGCTGCATCGCTGTGCATCCCACCCAGCCCTACATCCTCACAAGCAGTGATGACATGTTGATAAAGCTGTGGGACTGGGAGAAGAAATGGTCGTGCAGTCAGGTGTTTGAGGGCCACACACACTACGTGATGCAAATCGTCATCAACCCCAAAGACAACAACCAGTTTGCTAGTGCGTCGCTGGACAGAACAATAAAGGTTTGGCAACTGGGTTCATCTTCTCCCAACTTCACTCTGGAAGGTCATGATAAGGGGGTGAACTGCATTGATTATTACAGTGGAGGAGATAAACCTTACCTCATCTCCGGAGCCGATGACAGACTGGTCAAAATTTGGGACTATCAGAATAAGACATGTGTGCAGACGCTCGAGGGACATGCTCAGAATGTGTCCTGTGTAAACTTTCACCCAGAGCTGCCCATCATCATCACTGGATCTGAGGACGGCACAGTCCGGATCTGGCACTCCAGCACTTACCGTCTAGAAAGCACCTTGAACTATGGAATGGAGCGGGTTTGGTGTGTGTCTGGCTTGCGGGGCTCCAACAGCGTCGCATTGGGCTATGATGAAGGCAGCATCATTATCAAGCTCGGCCGTGAGGAGCCAGCCATGTCAATGGACACCAACGGAAAGATCATTTGGGCCAAGCACTCTGAGATTCAGCAGGCAAACCTCAAAGCCATGGGGGATGCAGAAATCAAGGATGGTGAGAGGCTGCCACTGGCAGTCAAGGACATGGGCAGCTGTGAGATCTACCCTCAAACCATCCAGCACAATCCTAACGGCAGGTTTGTGGTGGTGTGTGGAGATGGAGAGTACATCATCTACACCGCCATGGCTCTGAGAAACAAGAGCTTTGGTTCTGCACAGGAGTTTGTTTGGGCCCATGATTCATCCGAGTATGCAATCCGGGAAAGCAGCAGTGTGGTGAAGATCTTCAAAAATTTTAAGGAGAAAAAATCTTTTAAGCCAGATTTTGGAGCAGAAGGCATTTATGGAGGCTTCCTACTGGGTGTTCGATCTGTGAATGGTTTGGCTTTCTATGACTGGGAAAACACGGAGCTGATTCGACGAATTGAGATCCAGCCTAAACATATTTTCTGGTCAGACTCCGGTGAGCTGGTGTGCATTGCCACAGAAGAGTCCTTCTTTATCCTGCGCTACCTGTCAGAGAAGGTGGCCGCATCACAGGAGAACAATGAGGGGGTTACTGAAGACGGTATTGAAGATGCTTTTGAGGTTCTGGGAGAGATTCAGGAGGTGGTGAAGACTGGTCTGTGGGTGGGAGATTGTTTCATCTACACCAGCTCAGTCAACCGCCTCAACTACTTTGTTGGAGGAGAGATTGTCACCATTGCTCACTTGGACAGAACGATGTACCTTCTGGGATACATTCCTAAAGATGACCGTCTTTACCTGGGTGATAAGGAGCTGAACATTGTTAGTTATTCTCTCCTGGTGTCTGTCCTGGAGTACCAAACTGCCGTCATGCGCAGAGACTTTGGCATGGCAGATAAAGTGCTGCCCACCATCCCTAAAGAACAGAGAACCAGAGTTGCCCACTTCTTAGAGAAACAGGGTTTCAAGCAGCAGGCTCTGGCTGTGTCCACTGATCCAGAGCACCGCTTTGAGCTGGCGCTTCAGTTAGGAGAGCTGAAAATCGCATACCAGCTTGCAGTAGAAGCTGAGTCGGAGCAGAAGTGGAAGCAGTTGGCAGAGCTGGCCATCAGTAAGTGCCAGTTTGGACTGGCACAGGAGTGTCTTCATCATGCCCAGGACTATGGAGGTCTTCTGCTTCTGGCCACTGCATCTGGCAACGCCTCTATGGTTGCCAAGCTTGCGGAGGGAGCAGAGCGGGACGGCAAAAACAATGTCGCCTTTATGACATACTTCCTGCAGGGAAAATTGGACAACTGTTTGGAACTTCTGATCAAGACCAATCGTCTGCCAGAAGCAGCCTTTCTTGCCCGCACATATCTACCCAGTCAAGTTTCCAGAGTGGTGAAGCTTTGGAGAGAGAGTTTGTCTAAAGTGAATCAGAAAGCAGCAGAGTCTCTGGCAGACCCCACAGAGTATGAGAACCTGTTCCCAGGCCTGAGAGAGGCTTTTGTGGCAGAGCAGTACCTGAAAGAGACCAGCCTCGGCCAAACCAGACCTGCCTCTGACTACCCACTCATCACGCCTAATGAAGAAAGGAACGTGCTGGAGGAGGCCAGTGGTTATGAACCCAAAGGAATTCTCCCTGCTCCCACACAGCTGAAGCAGGAGGTCTCGGAGGATGAAGAGGTTTTGGCCTCAGTCTCATCAGTGTCTGCTGTGAGTTCTGCACAGTCCCAACCTGACCCGAAGCTCCAAGAGAAGACAGAAGAAAAAACTCCTGAAATTACAGCAGCAGAACAGAAGGTCATCGATGAACTTGAGGATGATTTGGATAACATGGAGCTTGATGACATCGACACTACAGATGTCAATCTGGATGACGACTTCCTAGACGACTAAACCATCTGCACTGAAGCATTGAGTTTATTTAAGTGaccaaatgttttgttttgttttttcgttGCTGTTAGAAATGCAGAGCTGAAGTCGGACTGGGTTCATTATAAACACGTTTTTTAGGCCGTACCaccaatggaaaaaaaatgtctgtgatctctttttttttttttttgtacttcttTCTGGACCTTCAATTGACATTTTACCTGTACATCAAGACTTATTGACCATGACAATTCATGGTGCCATTATTCATAATAAAGATAACTACTATACTAA
>TCONS_00032760
CTGAGTGTATATCTAATGATCTATTATAACAGACAGAGCATTAGTGACCACATAATAAAAACCGTTACTCAGACTCATGATGCAACAGCACTGCAAGATCCAATATAGGTGGCACAGCATAAACCTACTTTACTGGCTTGTTGATGAATGTAGAAGCCTTAAAATTGCATGAACAAAGGGCCAAGTTCTTACTGCTGTGGTCTGGAACTCTCTTTCCTAATGTTTCCATGAGAAGGAAGGAAATGCTGTGACTGTTTGAACTTACTGTTGCATTTcaattgtttacatatttcttgCTAAGATTAGTTATAATTAAAAAagcatatataatataaaatcaatCTTGCCCAATTAtaagtctttttttaattattaagatGACTGTAGTTCATTTCATTCTTTCATTGTTTTAAAGCCTAATGAAGAAAGGAACGTGCTGGAGGAGGCCAGTGGTTATGAACCCAAAGGAATTCTCCCTGCTCCCACACAGCTGAAGCAGGAGGTCTCGGAGGATGAAGAGGTTTTGGCCTCAGTCTCATCAGTGTCTGCTGTGAGTTCTGCACAGTCCCAACCTGACCCGAAGCTCCAAGAGAAGACAGAAGAAAAAACTCCTGAAATTACAGCAGCAGAA
>TCONS_00032761
ATTTGTCTGCTGTGCACAAAACTGCAGCCGTAAAAACACATCAGACTCTCACTGTGGATGATATAAAAACATTGCAGCTGAAGGAGACCAAACCCAACAAACGCAAAAATGCCTCTGAGGCTGGACATCAAGCGCAAACTCACGGCTCGATCTGACCGTGTCAAAAGCGTAGACCTTCATCCGTCCGAACCATGGATGCTGGCCAGTTTGTACAATGGCAGTGTCTGTGTGTGGAACCATGAAACACAAACTCTGGTTAAGACTTTTGAGGTTTGTGACCTTCCGGTGAGAGCTTCCAAGTTTGTTGCCAGGAAAAATTGGGTCATAACTGGCGCTGATGACATGCAAATCCGAGTTTTCAACTACAACACTCTAGAGCGAGTACACATGTTTGAGGCCCATTCAGATTATATTCGCTGCATCGCTGTGCATCCCACCCAGCCCTACATCCTCACAAGCAGTGGTATGTACAGATATTCATTAAGCATTTATTTTGCATATAATAAAATACACTGTGTACTTTTATATTTTATGCTGCTATTCAAAAATCTGATGTCAGAAATCTGATGTTAGTATATTAAGTTTATCCAAAGTGACTGTAAttcacatttattacatttacattattaacTTAAAGCTTTTTAGTACATTTTCTTTGACCTAAGCCTTATTATGGCATGGATAAGTCTAATAATTTACTTGTGTTTGAATGACAAGCCCTGGTGTCCTCTGTCACATTTTATAGTTTATGATTTATATGGCGTATTATATTGTGTGTATATCTGAaagatttaatataaatgtatatattaaccTTAATAaggaccttttaaaaaaaaattaagtgattcAGGTTCAAAACAACAAATTTTCATCATTGATGTTTATAAGAAATTTATTTTAAGCGTCAAATCAGCATATAGAAATAATTTTGATCATAACATGAACAGATACTTATGAAATGGCTGCTTCTGAAAATTGAGCTTTgcgtcacataaaaaaaaaagtcatttatttatttatg

Function

symbol description
copb2 Predicted to enable structural molecule activity. Acts upstream of or within notochord development and somite development. Predicted to be located in Golgi membrane and cytoplasmic vesicle. Predicted to be part of COPI vesicle coat. Is expressed in several structures, including axial mesoderm; cardiovascular system; digestive system; fin; and nervous system. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly 19. Orthologous to human COPB2 (COPI coat complex subunit beta 2).

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport biological_process
GO:0006890 retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum biological_process
GO:0006891 intra-Golgi vesicle-mediated transport biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0015031 protein transport biological_process
GO:0061053 somite development biological_process
GO:0030903 notochord development biological_process
GO:0030117 membrane coat cellular_component
GO:0030126 COPI vesicle coat cellular_component
GO:0005794 Golgi apparatus cellular_component
GO:0000139 Golgi membrane cellular_component
GO:0031410 cytoplasmic vesicle cellular_component
GO:0016020 membrane cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005198 structural molecule activity molecular_function

KEGG:

id description
ko04131 Membrane trafficking
ko04147 Exosome

ZFIN:

id description
ZDB-GENE-010724-7 Predicted to enable structural molecule activity. Acts upstream of or within notochord development and somite development. Predicted to be located in Golgi membrane and cytoplasmic vesicle. Predicted to be part of COPI vesicle coat. Is expressed in several structures, including axial mesoderm; cardiovascular system; digestive system; fin; and nervous system. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly 19. Orthologous to human COPB2 (COPI coat complex subunit beta 2).

Ensembl:

ensembl_id ENSDARG00000038743

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00032759 False 3218 mRNA 0.48 22 38997357 39015130
TCONS_00032760 False 631 lncRNA 0.39 2 38998048 38998761
TCONS_00032761 True 1024 lncRNA 0.35 4 39012920 39015104

Neighbor

gene id symbol gene type direction distance location
XLOC_016689 si:ch211-119o8.6 coding downstream 5044 38985489 ~ 38992313 (-)
XLOC_016688 prmt5 coding downstream 634340 38342298 ~ 38363017 (-)
XLOC_016687 slc7a8b coding downstream 660235 38318000 ~ 38337122 (-)
XLOC_016686 zp3f.2 coding downstream 684600 38285414 ~ 38312757 (-)
XLOC_016685 zp3f.1 coding downstream 712608 38282647 ~ 38284749 (-)
XLOC_016691 rbp2b coding upstream 936 39016066 ~ 39017838 (-)
XLOC_016692 rbp1.1 coding upstream 13207 39028337 ~ 39036604 (-)
XLOC_016693 nmnat3 coding upstream 47624 39062754 ~ 39090286 (-)
XLOC_016694 BX248328.1 coding upstream 355681 39370811 ~ 39370927 (-)
XLOC_016695 cbln7 coding upstream 534246 39549376 ~ 39558643 (-)
XLOC_016681 NA non-coding downstream 802878 38192959 ~ 38194479 (-)
XLOC_016680 NA non-coding downstream 851656 38144162 ~ 38145701 (-)
XLOC_016662 NA non-coding downstream 1181984 37813663 ~ 37815373 (-)
XLOC_016652 NA non-coding downstream 1580892 37413404 ~ 37416465 (-)
XLOC_016651 BX511231.1 non-coding downstream 1588200 37405351 ~ 37409157 (-)
XLOC_016697 NA non-coding upstream 595191 39610321 ~ 39612464 (-)
XLOC_016699 NA non-coding upstream 811574 39826704 ~ 39827511 (-)
XLOC_016700 NA non-coding upstream 815555 39830685 ~ 40033058 (-)
XLOC_016703 NA non-coding upstream 1178937 40194067 ~ 40196570 (-)

Expression


Co-expression Network