XLOC_022823 (nanog)


Basic Information

Item Value
gene id XLOC_022823
gene name nanog
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007135.7
NCBI id CM002908.2
chromosome length 42172926
location 12835935 ~ 12842103 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00045371
ATTATTCTTAGGTAAGTGTGGAACGAGAGTGTGTTTGTTTCACTAAAAAGCTGCATCTGATTGGTCCTTGCAACTTGCCGTCGCTCTAAACCCGCCCACAACCACTCACCTGGCAATATAAATCAGCATATCCACACATTTTTTACATCAGGTGATGTAAATGGGTCGGTAATTGTTACTATGAGGAGGAGCGCTTCAATCAGCATCCGTTTTCGAGGGTAGTCGAGccctttgggtttttttttttagtagtccggttttttttaattaggtgTTTAGTACGTTACTTTCTGCTTGAGTTTATCTAACGGCGAAATGGCGGACTGGAAGATGCCAGTGAGTTACAATTTTAACCCATCTTATCATGCATATGCATACGGGCTCATGTACCCGCAAGTGTCAGAGCACGGCGTCCCGAATCTGAGCTGGCCCGATGCCGCGTACACACACTCCGGCGGGGTCACAGCGGGCTACTTTACCGCTCAAACTGCACAGTCGCCACCCTGGAGCCCGGAGAACGGCGGCGCCAGCAGCACCTACAGCCAGTACCCGGGACACTCGCAGAACGGACGGCTCTTTCTGTCCTACAACAAGACTGAGCCCGACCAAAAGGCCAAAGATGCAGAGCAGACCAGCAGTGATACACCCAGTGATTCCGAGGCCCACACGCCAGATTCCTGGAGCTCAGCGAGCAGTCGAGAAGGGGTTCCTCTGACCAACCTCAATCTGCCATCCTGGAGAGATCGAGACTATGAAACAGACAGTGGTAGTCCTGACAGTGGAGAACGGAACTTAACCTCCACAGCAGGAGAGGAGCCAGTCAATCTGAATCTGGGGGTCGATACCCAGCCTCCTCTGCCTGCATTGACTGCATCTCCTGTCCGGCCTCCGACCCTGCCCCGCAAGACCCGGGCTGCTTTTTCTGAAGAACAGATGAATGCTTTGGTCAATCGGTTTAATGTCCAGAGATACCTCACGCCTGCAGAGATGAAAACGCTTGCTGGAGCAACAGGATTAACATACAAGCaggTAAAAACATGGTTTCAGAACCGCAGGATGAAACTCAAGAGGCATCAGAGAGACAGCAGTTGGATGACTGAGAGATATGTTGTCAATGCTGTACCCAACACACCAGCTTCTCAATCTCAGTTTCAGAGTGAACCCCCTGGAGCAAACCAAGACCACTACATTAACCCTCAGGTGAGAGAACCTGTTTTCAAGAGGAGTCCTCCAAAAACACCCTTCTACCCCAGTTACCCACAGCCACGCTCCCCAACACAGGCCACCTCGAGACCCCCAGGAACCTGGCCTCTGCCCCCAGCTGTGACGCACTATGAGTTCCCCAACCCCATCAGCTACATGCCAGCACGTGATGGCAGCAATGCAGTGAACAAAGAAAGCAGCCCTTCTCCGCTGGCAACTTCGCCTACTGCTGGCCTGTGGGCAACTAAAGGAATAACTTTGCTGTGAGTCCAGCTGCTTCGTGTATTTTATCAATCTTCAGCCACACAGCCTTCAGTCTTcttgtttgtaaataattttttggCAACACGTTGGATATTTTTAGGCAGTGATGTCATGGGTTGCCAGTTGGGGCTGAGCGAGACGCGTCTCCTGATTTTGATCCTGTAAAGTTGCCATTTTTAAACTCCGCTTGTTTTATACTGGAGAtctatttttataactttgtacCTTTTTCAGAGTATTTAATATGTTGATCCTTTGCTCTTCcagattttctttttgatttggtcagttatgaatttgtatgaatgtATGCAAGGCACTGTGCAACATCTAATGTGAATGGGGAAAGGGTTGTGTCTGTACTGCACTGTTCTATCAATCTCACTGCATCTGTGTATGTCATTCATTAggtttgtgcatttttttatgcCAAAATGTTCCTTCTCTGTACTAATGGAAACATTAAGTTGTGATCAACACTCTTGTGCTTGCAAACTACACAACATCCTTTCGAGCAATAAATGTTTGGTCTGTTCCTACATTTCAACCAAGGTTGTGTAGCCTATTGTCaatcttaatttttcttttactCTTGTATAGTGGTGTTGTGATTTTTGGCTTGAACGGGGCAACCAATTTTAGCAGCAAAACTCCACCCTTTTATGGCCATCAGATTGTTTTATACTTAACCAATTGTTTAATTTCTTGTTTTAGCTGGTCTTGCTATTGCTAGTGttggcatttattattttttttttaagatgtcagTCATTTATGCCATAGACTAATTAGAAAtgttaatccaaatactttagtgTATTGTGGTTAGATTACATTTAAAAttgcatttgattttattttggtCTATTATAGTCTAGCTAGCCCCTTGATCATCAATTTTATGCCAcaatatgcagtttttttttttttttcccccagccACATTGACTCATttagtttcatgttaaacatttttatttacttcttGAATTTGGTAGCATGATTCTTTATCTAGATTCATGATTCTTTATCTAGATTTGACCTTGTTGGCAAAACATTTTTTACTTCATGCAGTTAACTAGATTTCAATTTGGTAATGGCACCACCTAATGGTTGAGTAGTTCAGTATTAAAATCCGTTACTAGTGAATAAAGTTGTTTTCATGCATTCATCAATTAAAGTCTTTTCATGTCAGTGGGTCTGATCCTGTTATTTTACCTCCCAGATTCTGCCTCTAGGGCTGTCTGGAGGAATAATTTTACAATTGCCACTTCTATATTTAATCAAATCGTCACCTTAAAATTGACATTTGTCAATTGAgttgacattttttattaattgacaacttatttacatttgatattttaagaatttttatgtgtatatttattttatatatatgtatgtgtgtgtatatatatgtatgtgtgtgtatatatatgtatgtgtgtgtatatatatgtatgtgtgtgtatatatatgtgtgtgtgtg

Function

symbol description
nanog Enables chromatin binding activity; identical protein binding activity; and sequence-specific DNA binding activity. Involved in nucleosome organization. Acts upstream of or within with a positive effect on yolk syncytial layer development. Acts upstream of or within several processes, including cytoskeleton organization; endoderm formation; and regulation of gene expression. Predicted to be located in nucleus. Is expressed in several structures, including blastoderm; blastodisc; liver; neuronal stem cell; and reproductive system. Orthologous to several human genes including NANOG (Nanog homeobox).

GO:

id name namespace
GO:0001706 endoderm formation biological_process
GO:0034728 nucleosome organization biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0043622 cortical microtubule organization biological_process
GO:0060968 regulation of gene silencing biological_process
GO:0010468 regulation of gene expression biological_process
GO:0007369 gastrulation biological_process
GO:1905936 regulation of germ cell proliferation biological_process
GO:0030036 actin cytoskeleton organization biological_process
GO:0090504 epiboly biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003682 chromatin binding molecular_function
GO:0042802 identical protein binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG:

id description
ko04550 Signaling pathways regulating pluripotency of stem cells
ko05205 Proteoglycans in cancer
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-030131-5486 Enables chromatin binding activity; identical protein binding activity; and sequence-specific DNA binding activity. Involved in nucleosome organization. Acts upstream of or within with a positive effect on yolk syncytial layer development. Acts upstream of or within several processes, including cytoskeleton organization; endoderm formation; and regulation of gene expression. Predicted to be located in nucleus. Is expressed in several structures, including blastoderm; blastodisc; liver; neuronal stem cell; and reproductive system. Orthologous to several human genes including NANOG (Nanog homeobox).

Ensembl:

ensembl_id ENSDARG00000075113

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00045371 True 2959 mRNA 0.42 4 12835935 12842103

Neighbor

gene id symbol gene type direction distance location
XLOC_022822 si:ch211-196f5.2 coding upstream 83433 12740848 ~ 12752502 (+)
XLOC_022821 rec8b coding upstream 101352 12690163 ~ 12734583 (+)
XLOC_022820 NA coding upstream 543400 12291736 ~ 12292535 (+)
XLOC_022818 lztfl1 coding upstream 582603 12133814 ~ 12253332 (+)
XLOC_022819 CR855257.2 coding upstream 634313 12200260 ~ 12201622 (+)
XLOC_022824 NA coding downstream 11283 12853386 ~ 12854192 (+)
XLOC_022825 si:dkeyp-28d2.4 coding downstream 52179 12894282 ~ 12918330 (+)
XLOC_022826 psme1 coding downstream 103700 12945803 ~ 12954482 (+)
XLOC_022827 eloca coding downstream 141331 12983434 ~ 12988849 (+)
XLOC_022828 flj11011l coding downstream 147624 12989727 ~ 13016024 (+)
XLOC_022817 CU929203.1 non-coding upstream 703490 12129726 ~ 12132445 (+)
XLOC_022816 NA non-coding upstream 733797 12095530 ~ 12102138 (+)
XLOC_022814 NA non-coding upstream 774583 12055030 ~ 12061352 (+)
XLOC_022813 NA non-coding upstream 877802 11956998 ~ 11958133 (+)
XLOC_022832 NA non-coding downstream 513158 13355261 ~ 13600272 (+)
XLOC_022835 NA non-coding downstream 916597 13758700 ~ 13764804 (+)
XLOC_022837 NA non-coding downstream 1212993 14055096 ~ 14078636 (+)
XLOC_022840 BX248495.1 non-coding downstream 1508797 14350900 ~ 14351020 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000327_02543289_02546223 NA coding CI01000327 null 2542690 ~ 2546384 (-)