XLOC_025321 (atf4b)


Basic Information

Item Value
gene id XLOC_025321
gene name atf4b
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 24197934 ~ 24200819 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049982
GCCGGCAGATCCGTTCTCTTGCAAAGCTGATTGTTGTTGAAAGCCGAGCGATTCTGCTCTCCGCCGAAATGGCCGTGTGAACTGCAGCCTGTAGACAGCGCGCAAACAACTCAGTGCATCAACATAGTGCACTGGTTCAGTACATTTATATCAAAATGGCgtCCTTTGTGGCAACTCTGATCTTTGCTGTACCCGACAGCACGAAATTATTTGAATTCTCAGTAGAAGATTCTCTGATTCCACTTGAAATAGACAGCCATGTCTTTGATGAGCTCACGGTTTGGCCTGGACGATATGGAGGTCCTTCTCTGGGACCCATCATCACCGATGGCTGACCCTCTGCGGTCAATTCTAGATAAAGATGAAGAGGTTCTTCCTCTTGGAGGTGCTGAATCACCCCTCTCATCTTTCTCTTCCTCTTCACTTCCCTCTCTTTCCCCACCTTGTACTCCTCCCTCCCCTCAGAGGGGGGAGAAGGCTGGGCTTGATCCGGTGTCTCTGCCCTGGTTACCCTCAGATGAGCTGTGCCTAGATAATCGTGGCACAGACAGTGGTGAAGatcaTTCGTTTAGTGGAATGGATTGGATGACAGAACGAATTGATCTGAGTGAGTTTGATCTGGAGTCTTTGATAGACTCTTATGATTCTGAGGATCCACCCAGTTCTCCTGAGGAGCTCATTGCTTCTCTGGAGTCACAGATTGACCTGGAGTCCCTGCCTGTAGCTTCTGACAATACTTCACCCTCTCCATCAGCCTCTGTCCCTGAAATTGATCAACTCTCCAACCTTTCATTCACTTTGAATACTCCAGTTACTACACATCTCATTCCCCCATCCCCTTGTGAAATCTTAGATTCCTCCTCGGTGGTCCCTGAGCCCCAGGCTGAGTTTGAGATCAAGTCTGAACCAGCCTCTCCAGTCCCTTCACCTTCAGTCCTTCCCCCTGAGTCCCCTACTGACACTCTTGAGCTTGGTTGCGAGGTGGACATAGCAGAAGTTCAGAGTCCATCCCCTGTAGAGTTGCGGGTTCCTAAATTTGTCCTCTCTTTGTCCCCGACCCGCATTGTTTTTGTACTTGCTCCCAAAGAGGAGGTTAATGCAATGGCTACCCATTCAGGTGAGGTGGTTGTGGAAAGTTCCCCAAGTCCAACCTTCTCTGAACCCAAAACCCCATCCTGTCCTCCGTCCCGCTCTTCTAGAGCAAAGCCCTACCTTTCCCACGATTTTAAGACCACCAAAAATCAGCAGTCAGAGTCGCCTACCCTTACAGGACGAGTGAAGTCAGCCAGTGGCTCAAAGGTTGTGGTTGAGAAGAAAAAGCTGAAGAAAATGGAACAGAACAAGACTGCGGCAACTCGCTACAGACAGAAAAAGCGTGCAGAGCAAGAGACGCTCCTGTCAGAATGTGCAGTGCTCGAGGAGAGAAATCAAGAGCTGGCAGAAAAAGCTGAGTCTCTTACAAAGGAGATCCAGTACCTGAAAGAGCTAATGGAAGAAGTCAAGAGGGCAAGAGAGAACAGAAGTTCGAGAACATAAAAGGACTCAGAAGCTGAGCAAAATTGACGGTTTAGCATAGCCTGAAGTGCAGAATGCTAGTTATGAATGTTAGTCCTAAAAGAAAGTATTATATGAagggttgaaaaaaaaactgttgatttCTTCCCCGGTTTCTAaatagaaaagctttttttttagcaTGTCAGCTATCAACAGagctttatattttgtatttttttagtcGTGTGTATCTTATCCTATGCACTGTATTCTAATATAATGCattgtgtattaaaaatgtttagtcCTAAAATGATGCTGTAGAAATGCTTTGTATTTAACCTTTCCCAACGATTTAATAATAGAAATTGTTTGGTGTACACATACTGAATTATCTATTTAGGAATTTTGTTTTTGTATGGACCTCTCACTGCATATCACCCAGCTTGAACCTTATATGTATattaaacctttctaaaaataa

Function

symbol description
atf4b Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in cytoplasm. Predicted to be part of ATF1-ATF4 transcription factor complex and ATF4-CREB1 transcription factor complex. Predicted to be active in nucleus. Is expressed in several structures, including gill; heart; liver; muscle; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in prostate carcinoma. Orthologous to human ATF4 (activating transcription factor 4).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0036091 positive regulation of transcription from RNA polymerase II promoter in response to oxidative stress biological_process
GO:0043065 positive regulation of apoptotic process biological_process
GO:1990440 positive regulation of transcription from RNA polymerase II promoter in response to endoplasmic reticulum stress biological_process
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-070928-23 Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in cytoplasm. Predicted to be part of ATF1-ATF4 transcription factor complex and ATF4-CREB1 transcription factor complex. Predicted to be active in nucleus. Is expressed in several structures, including gill; heart; liver; muscle; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in prostate carcinoma. Orthologous to human ATF4 (activating transcription factor 4).

Ensembl:

ensembl_id ENSDARG00000038141

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049982 True 1981 mRNA 0.45 3 24197934 24200819

Neighbor

gene id symbol gene type direction distance location
XLOC_025320 prr15la coding upstream 664 24189804 ~ 24197270 (+)
XLOC_025319 CR790362.1 coding upstream 13508 24161869 ~ 24184426 (+)
XLOC_025318 si:ch211-246i5.5 coding upstream 52684 24134418 ~ 24145250 (+)
XLOC_025317 NA coding upstream 64449 24121201 ~ 24133485 (+)
XLOC_025315 copz2 coding upstream 86522 24094581 ~ 24111412 (+)
XLOC_025322 adsl coding downstream 6424 24207243 ~ 24218622 (+)
XLOC_025323 NA coding downstream 16369 24217188 ~ 24217511 (+)
XLOC_025324 zgc:123244 coding downstream 19535 24220354 ~ 24226028 (+)
XLOC_025325 pdgfbb coding downstream 74778 24275597 ~ 24297419 (+)
XLOC_025326 pvalb6 coding downstream 96663 24297482 ~ 24434905 (+)
XLOC_025429 BX649540.1 misc downstream 6047920 30248739 ~ 30249036 (+)
XLOC_025316 dre-mir-152 non-coding upstream 101898 24095957 ~ 24096036 (+)
XLOC_025313 NA non-coding upstream 229968 23930446 ~ 23967966 (+)
XLOC_025311 dre-mir-10c non-coding upstream 477189 23720651 ~ 23720745 (+)
XLOC_025327 NA non-coding downstream 237778 24438597 ~ 24452013 (+)
XLOC_025342 NA non-coding downstream 729761 24930580 ~ 24936255 (+)
XLOC_025344 CR936416.1 non-coding downstream 855157 25055976 ~ 25060120 (+)
XLOC_025351 NA non-coding downstream 1107891 25308710 ~ 25308964 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) G169340 NA unknown CI01000034 null 1250219 ~ 1310878 (+)
mexican tetra (Astyanax mexicanus) G142044 NA non-coding NC_035912.1 CM008315.1 16805097 ~ 16806172 (+)