XLOC_025224 (cbx4)


Basic Information

Item Value
gene id XLOC_025224
gene name cbx4
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 18555899 ~ 18564030 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049821
AGCAGCCAGCGCGCCAGTGAGCCTTTCCAGTGCTCGCCGCTCAAACGTGGACACAAATACGAGGGAAAGAGGAGGGGGCGAGGGACGAATTAATCTCGGGACACAGCGGTGGCAGAACGTGAGGCACCGAAGCATTGCAGCGAGGAATTTTGGTGGATTTTTTCCGGCTCGTTCGCTTCAAACGGGCGGCGGAGGCGCAATGGATCTACCTGCCGTCGGGGAGCATGTCTTCGCGGTGGAGGGCATCGAGAAGAAGCGCCTACGGAAGGGTAGAATGGAGTATCTGGTGAAGTGGAGAGGATGGTCACCCAAATATAACACATGGGAACCGGAGGAAAACATTCTTGACCCGCGCCTTCTTGTCGCTTTCCAAAACAGAGAAAGGCAGGAGCAAATGGTGGGATATCGAAAAAGAGGGCCTAAACCCAAACACCCACTGATCCAGCTTCCCGCATTTGCTCGTAGATCAAGCATCCTGGGTGGTCTTCAGGACACATCATTGGATGAGGAAAACCAGCCCAAGGTGGATTCCCTCCAGATGCACCGCTCACGGCCGCAGCACTACCAGCTGAACAGTAAAAAACACCACCAGTACCAACCCAGCTGCAAGGAGATCTGCCTGTGCAATGCTAGATAAACAACTGGATTGTTTGACGTCCCCTATCTGTAAGAAGTTAAGGTTGCACTTTATCATCTCCTGGATCTCTTTTGTTAATTAATTCAGGTTCTTTTTATAGAAATAAATCATAACCGCTGTTTATTCTCATCACAACATGCAAGCCGTTATATGTGACTATAAGTAAATGTAAGATCGATGCTTACATTGGACAGCTTATCAATTTTTGTATGTAACTGGAATCAGTTTACAGTCAATCTGATGTACTGCAGAATATGTACAGGATGTAATGTACACATAATGCCATGAAGGTTATGGCCGTTTATATGCATAATGTCATGTTTTATGCATACTTTGAATTGCCGGTTTGAATATGCTTCTCAATATTACTCTCtgttcaataataaaacaaaaacctgTTTTACAATC
>TCONS_00049822
AGCAGCCAGCGCGCCAGTGAGCCTTTCCAGTGCTCGCCGCTCAAACGTGGACACAAATACGAGGGAAAGAGGAGGGGGCGAGGGACGAATTAATCTCGGGACACAGCGGTGGCAGAACGTGAGGCACCGAAGCATTGCAGCGAGGAATTTTGGTGGATTTTTTCCGGCTCGTTCGCTTCAAACGGGCGGCGGAGGCGCAATGGATCTACCTGCCGTCGGGGAGCATGTCTTCGCGGTGGAGGGCATCGAGAAGAAGCGCCTACGGAAGGGTAGAATGGAGTATCTGGTGAAGTGGAGAGGATGGTCACCCAAATATAACACATGGGAACCGGAGGAAAACATTCTTGACCCGCGCCTTCTTGTCGCTTTCCAAAACAGAGAAAGGCAGGAGCAAATGGTGGGATATCGAAAAAGAGGGCCTAAACCCAAACACCCACTGATCCAGCTTCCCGCATTTGCTCGTAGATCAAGCATCCTGGGTGGTCTTCAGGACACATCATTGGATGAGGAAAACCAGCCCAAGGTGGATTCCCTCCAGATGCACCGCTCACGGCCGCAGCACTACCAGCTGAACAGTAAAAAACACCACCAGTACCAACCCAGCTGCAAGGAGATCTCCGTTGAGCAGCATATGAGCGGGAAAAAGAAACACTTCTACCAGCTGAACAGCAAGAAACATCATCACTACCAGCCGGACCCCAAGATGTACGACACGCCACTCACGGGGCCCAAAGAGGTCAAGGGTCAAGACCCTTCCAACAAAGGCTGGAACCTCCCTCCAGCCCTACAACAGAAGTGGATTCGCAACAAAGACACCGGCTGCCTGAGTAAAGTGAAAGATCTGTCTATCGAGCTCAAGGGTTTGCCGGATAATGCTAACAAAGCAGAGCGGACACTCAAGACGAGTGCCAAAGAGTTTGCACTTCCTAATGGCATCAGCAGCAAGATGAAAATAatcaagaacaaaaacaaaaacggcCGAATTGTCATTGTAATGAGCAAATACATGGACAAAGGTGTGCATTCATCCAAAGTAAAGAACAGGGATGTTTCTCAAGTGGAAACGGTACACAATGAGGAACCTCCAGTGAATGGTACGGACAATCGGTCTGATGGTGAAACACCAGATCAAGGAGAAGGCCGTGAGAATGGTTCTATTGAGAAACCCAGTGAATATGTTGATGAAAAGTCTCTCAGAAAGGATATGCCTGGACAAAAAGCCACAGAAATATGCGACCGACCAAACTCTTCGCCAGGGAAGGTAGACGCCAAATCAAATCACCTTAAGAGGCATCTTTCAGAGCCCAGCGAGGACGTGAGAAACTGTAAGCAGTTCCTGAGCTTCAGGAGCATTAGTGCGCCAAACTCTTCCCCTCAGAGAGAACCTATAAACCTGCATTACAAAAGCAGCCATGTGGATAATTACGACTTTAGCGACTCTATTCCCGAAGAGCCTATTGATTTGAGCGCCAAAACTCTAAAACGGTTCACTGCATTGGACAAGGTTTCAGGAAGCTCAGCACAAATGGACAAAACAGACAGCCAATGTAAAGCCTTCGTGGGAAACGTTATCATCACTGATATCACCACGAACTGCTTGACCGTTACCTTTAAAGAATACGTTCAAGAATGAAATCAAATTTCATTTGAACCAGCTCAAAGCTGATCAAAGCTTATGCACTGATCATAGCCATTCCCGAAGATCTGTGTACACATTTATTTAGGCAAATGAACCATTTATATATTaacagttcagatgcaaaagtctCTTAATCCCCTCTGAAATTCTCttctaaaattaacatttttctcagctttctatgtttatgttcagttttttCCACTTAAAATTACCTTTTCATCACCATTAATGTGACATAACAGGTCATAAACACAGGATCCTGaaagaaatgctcattttaaaagaagatttcagacggcacttaaagGCTTtagcatctaaactcttcatttatctatatatacatacagacaaGCCTCAAAATTATTCAtgcccctggcaaattctgaatttattcaaccagcaagttttgttttttttggactGTAAATGACAGGCTTCTCACATAACATAATAAGATGACGTATAAGAGACatcattgtagaaaaaaaatatttgagtaAAAATATTTCAGGGTTATTAATACTTTTGGGctggactgtatatatatatatatatatatatatatatttatatttgacaaCATTAAATTTATGTTTGTGACAACATTTTCaactaataacaaaaaaactactTTTCATATGTGATACTTTTCAAAAAAGGCAAAGGAAATAAACCTTCGGTTTCAGTACGCTGTTGTCATGTAAATGTCCCATTAGATGTCATGTTTTGCATTTTGCTGCTGTTGAAATGGAATAGAAAACCCTGTAATATAGTTCCTAAAGCTTCGGATTGGTTCCAATTTTAATGCTACCTAAAAAAAATCATCCTATTGGAGAAAGCACACTGGTGGAATGAAGAATTCATTGAGGACTGACGCGCGCACTTACACCTTTCTTCATCTTGGACCacgttttgaattttttatcCAATTGAAGAATTGTCAAGATGTACATATATGAGATCTATAACTGTTGAGTTGCTTGGTTGGAAAGGTGTCTTCATAATGTGAATGAATGTacctttaaaaagtatttttgcatATTAGAGTAAGAGATTTGGTTTTTGCGgaaatattttacttgattagATTTCCAGATGCTGTTGGCCTGTGAGATCTGCCTGTGCAATGCTAGATAAACAACTGGATTGTTTGACGTCCCCTATCTGTAAGAAGTTAAGGTTGCACTTTATCATCTCCTGGATCTCTTTTGTTAATTAATTCAGGTTCTTTTTATAGAAATAAATCATAACCGCTGTTTATTCTCATCACAACATGCAAGCCGTTATATGTGACTATAAGTAAATGTAAGATCGATGCTTACATTGGACAGCTTATCAATTTTTGTATGTAACTGGAATCAGTTTACAGTCAATCTGATGTACTGCAGAATATGTACAGGATGTAATGTACACATAATGCCATGAAGGTTATGGCCGTTTATATGCATAATGTCATGTTTTATGCATACTTTGAATTGCCGGTTTGAATATGCTTCTCAATATTACTCTCtgttcaataataaaacaaaaacctgTTTTACAATCA

Function

symbol description
cbx4 Predicted to act upstream of or within negative regulation of transcription, DNA-templated. Predicted to be located in nucleus. Is expressed in several structures, including digestive system; eye; heart; pectoral fin bud; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in hepatocellular carcinoma. Orthologous to human CBX4 (chromobox 4).

GO:

id name namespace
GO:0005634 nucleus cellular_component

KEGG:

id description
ko04121 Ubiquitin system
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-040329-2 Predicted to act upstream of or within negative regulation of transcription, DNA-templated. Predicted to be located in nucleus. Is expressed in several structures, including digestive system; eye; heart; pectoral fin bud; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in hepatocellular carcinoma. Orthologous to human CBX4 (chromobox 4).

Ensembl:

ensembl_id ENSDARG00000099441

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049821 False 1045 mRNA 0.46 6 18555899 18564029
TCONS_00049822 True 3191 mRNA 0.41 5 18555899 18564030

Neighbor

gene id symbol gene type direction distance location
XLOC_025223 tbc1d16 coding upstream 53869 18437397 ~ 18502030 (+)
XLOC_025222 gaa coding upstream 120324 18424244 ~ 18435575 (+)
XLOC_025221 GAA coding upstream 132821 18413461 ~ 18423078 (+)
XLOC_025220 rps2 coding upstream 152720 18398876 ~ 18403179 (+)
XLOC_025219 si:ch211-139g16.8 coding upstream 159335 18389363 ~ 18396564 (+)
XLOC_025225 cbx8a coding downstream 3530 18567560 ~ 18571115 (+)
XLOC_025226 arhgap17b coding downstream 15776 18579806 ~ 18650640 (+)
XLOC_025227 NA coding downstream 106794 18670824 ~ 18672291 (+)
XLOC_025228 narfl coding downstream 192201 18756231 ~ 18769951 (+)
XLOC_025229 AL772362.2 coding downstream 207498 18771528 ~ 18788485 (+)
XLOC_025429 BX649540.1 misc downstream 11684709 30248739 ~ 30249036 (+)
XLOC_025218 NA non-coding upstream 358773 18189609 ~ 18197126 (+)
XLOC_025215 NA non-coding upstream 494116 18040613 ~ 18061783 (+)
XLOC_025203 CU207238.1 non-coding upstream 1094014 17395239 ~ 17461885 (+)
XLOC_025197 BX470185.1 non-coding upstream 1672595 16874401 ~ 16883304 (+)
XLOC_025188 CR388224.1 non-coding upstream 2182772 16373012 ~ 16373127 (+)
XLOC_025233 AL772362.1 non-coding downstream 303805 18867835 ~ 18867952 (+)
XLOC_025234 CU151886.2 non-coding downstream 328620 18892650 ~ 18892766 (+)
XLOC_025235 CU151886.1 non-coding downstream 353431 18917461 ~ 18917583 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000034_04811319_04813561 CBX4 coding CI01000034 null 4811319 ~ 4814665 (+)