XLOC_021612 (apobec2b)


Basic Information

Item Value
gene id XLOC_021612
gene name apobec2b
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 19213472 ~ 19221027 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00042895
ATGGCAGACAAAAAGGACAGCAAGACTCCTAGTAAAGGTGgttttataaaaaagaaagagaagaaaGTGGAGAAAGTAGAGAGTAAACCTGAAAAGGAGAAAGAAAAGagcaaaaataaagatgaaaagaCGACAAAGAAACCAGAGAAGACCCCAGAAAATCAACCAAAAAATGAAGAGATGCCTCAAGGGAATGGGGAGATACCAGAAGAAGCCAAAGGCCCAGTCAAAAATGAGGAGTTTGAGCTAGAGCCGATGGAGCTGCCGCCATTTGAGATCATTGTAGGAGACCGAATAAACCCAACCTTCTTCAAGTTCCAATTTAAAAATGTGGAGTACTCGTCCGGGCGCAACAAGACCTTCCTGTGCTACCAGGTCGACATACAAGGTGGAGCAGCAGAGACGGATGGCGTTCGTGGTTACCTGGAGGATGAGCATTCAGGCTCACATGCCGAAGAGGCCTTCTTTCAACAGGTGCTGGCCTATTATGACAAGTCCCTCCGCTATACAGTGACTTGGTACACATCGTCCAGCCCTTGTGTGGCCTGCGCTGCTAAGCTTGTGGAGATCTTGAAAGCACGCAAGGCGCTGCGCCTTAATATCCACTGCTCCCGTCTCTTTGAATGGGAGGAACCGGAGATACAGGCCGGACTTCAGGCGCTAGTTAGGGCAGGGTGTAAACTACGCATGATGAGGCCTGTGGATTTCGTGTATGTCTGGTCTACTTTCGTTGAGAACGAAGAAGATAATTTTACACCCTGGGAAGACTGTCAAGATAACTTTGAGTATTATGATGAGAGATTGCAGGATATTTTAAAGTAG

Function

symbol description
apobec2b Predicted to enable RNA binding activity and cytidine deaminase activity. Acts upstream of or within several processes, including cell dedifferentiation; sensory epithelium regeneration; and skeletal muscle organ development. Predicted to be active in cytoplasm and nucleus. Is expressed in retina. Orthologous to human APOBEC2 (apolipoprotein B mRNA editing enzyme catalytic subunit 2).

GO:

id name namespace
GO:0080111 DNA demethylation biological_process
GO:0043388 positive regulation of DNA binding biological_process
GO:0016554 cytidine to uridine editing biological_process
GO:0043697 cell dedifferentiation biological_process
GO:0031099 regeneration biological_process
GO:0070654 sensory epithelium regeneration biological_process
GO:0060538 skeletal muscle organ development biological_process
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005515 protein binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0003824 catalytic activity molecular_function
GO:0004126 cytidine deaminase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-090618-1 Predicted to enable RNA binding activity and cytidine deaminase activity. Acts upstream of or within several processes, including cell dedifferentiation; sensory epithelium regeneration; and skeletal muscle organ development. Predicted to be active in cytoplasm and nucleus. Is expressed in retina. Orthologous to human APOBEC2 (apolipoprotein B mRNA editing enzyme catalytic subunit 2).

Ensembl:

ensembl_id ENSDARG00000113992

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00042895 True 822 mRNA 0.46 2 19213472 19221027

Neighbor

gene id symbol gene type direction distance location
XLOC_021611 si:dkey-109j17.5 coding upstream 7053 19202636 ~ 19206419 (+)
XLOC_021610 ccdc115 coding upstream 12144 19198244 ~ 19201328 (+)
XLOC_021609 si:dkey-93l1.4 coding upstream 25656 19182819 ~ 19187816 (+)
XLOC_021608 CR388168.2 coding upstream 31084 19177891 ~ 19182388 (+)
XLOC_021607 NA coding upstream 94029 19105546 ~ 19119443 (+)
XLOC_021614 NA coding downstream 252369 19473396 ~ 19476151 (+)
XLOC_021615 atp6ap1lb coding downstream 337547 19558574 ~ 19583814 (+)
XLOC_021616 slmapb coding downstream 368979 19590006 ~ 19604413 (+)
XLOC_021617 flnb coding downstream 385264 19606291 ~ 19652915 (+)
XLOC_021618 abhd6b coding downstream 434274 19655301 ~ 19667758 (+)
XLOC_021606 CR788311.1 non-coding upstream 146485 19051485 ~ 19066987 (+)
XLOC_021604 NA non-coding upstream 284470 18924470 ~ 18929002 (+)
XLOC_021602 CR847953.2 non-coding upstream 482073 18731322 ~ 18731399 (+)
XLOC_021627 AL953864.1 non-coding downstream 966598 20187625 ~ 20187739 (+)
XLOC_021628 NA non-coding downstream 1124283 20345310 ~ 20361426 (+)
XLOC_021632 CR352228.2 non-coding downstream 1250728 20471755 ~ 20471870 (+)
XLOC_021651 NA non-coding downstream 2252075 21473102 ~ 21474482 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000001_05587090_05591952 APOBEC2B, APOBEC2 coding CI01000001 null 5587090 ~ 5592138 (+)