XLOC_012177 (traf3)


Basic Information

Item Value
gene id XLOC_012177
gene name traf3
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007128.7
NCBI id CM002901.2
chromosome length 53461100
location 29227502 ~ 29249258 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00023998
GGCTTCTCTACCTTTTCGTGCACCTCAACCGAGCCCATTTCAGAACATTCCGATGTCAAAATGACCCGATTTGATCCGACGGCCGTTGTAGCCTGTTTGAGAAGCGAGGACGCAGCCGTGGCCGCGTAAATTTGGACGTTGTTGTCTcggtgtgtgtctgtctgtcataTGAGTGGACCATCCGTGGCTCCATTCGTGAAATTCTTCAGAGAAACACGGTTGGAACATCGGACGACATCGCTGACCAACTGATTCATGTCATGTCCGCAGGGCGTAATGTGGAACAGCAGATTCCCCTGCAGCAGCGTCCTCCATCTCTTGCCATGCCCTCCATGGCCCAGCGGCCCAGGCCCGAGCCAGGCTTCTCTCCCCTGCACGGCGGTTTCCGGGACCACTTTGTCACGACGCCTGAGCCCAAGTATTGCTGTGAGACCTGCAGGCTAGTGCTCTGTAACCCACGCCAGACTGAGTGTGGACATCGCTTCTGTGAAAGCTGCATCAATGAACTGCTCAGTAAGCCTAACCCAGTGTGTCCAGCTGATCTACTACCACTTTTTGAAGATAAGATATTCCGGGATGTTTGCTGCAATAGGGAAATCATGGCTCTTAAGGTCTACTGCCGAAGTGAGAAAAATGGATGTAAAGAACAAATGTGTTTACAGCAGGTCATGGAGCATTTGGTAATTTGTCCATATTTCGAGGTGCCGTGTCCTTTGGGAAAGTGTAAGGAGAAGATGATGAGGAAAGATATGCCCGAGCACCTAAGCCGCAAATGCAAACACCGAGAGGTCACCTGTGAATTCTGCAGTCTCAAAATGGCCCTCACTGAATTACAGAAACACAAAGAAACCGTCTGTCCTGCATTTCCTGTAGCATGTCCTAATCATTGCTCGTTTTCTTCTATTCTAAGAAGTGAGCTGTCAAGTCACCAGCATGACTGTCCAAAGGCTCAGGTGACCTGTTCCTTCATTCGCTACGGATGCTCCTACAAGGGGCTGAATCAAGAGATGAGGGAGCATGAGTCCAGTTTTGCATCTGAGCATCTAAGAATGATGGCAGTCAGAAACACCACACTAGAAGCCAAGgtTGAAGATGTGAAGAGTGAGTTGATGGAGCGTTATAAAGTTCTGCCGAGTCTCAGCAGTCGTCTTGCTGAGGTGGAGCGTCAGTATGAGGAGATGAGAGAAAAGAACAGGCAGCTGGAGCAGAAGCTGGTCAGCATGCAGatGTTGATGAGCTCTCACTCAGAGAAGCTGCTGGAGGTGGAGATGGAGCTGCGGGAGCTCCGTCCACTGCGGGCCATGAGGGAGGAGGTGGAGACTCTCAGGGGCTCTGTGGAGAGCATGCGCTCGATGGTCTCTTCTCTTGACTCAAGCTGTGTCAATTCTGCTTCTGGTTCTCATACCCTGGCCTCCTTAGAGCAGCAGCTCACACGCCATGATGACCTGATGAGCGTTCACGACGTGCGGCTGGCAGAGATGGATCTGAAGCTGCAGGTGCTGGAGACGGCCAGCTTCAATGGTACTCTCATTTGGAAGATTCGGGATTACAAAAGGCGGAAACAGGAAGCTGTGGTCTCCAAAACCCTTTCGCTCTACAGCCAGCCCTTTTACACAGGGTATTTCGGCTATAAGATGTGCGCCCGCGTCTATCTCAATGGAGATGGGATGGGCAAAGGCACACATCTCTCGCTCTTCTTCGTGGTCATGCGTGGTGAATATGATGCCTTGCTACAATGGCCGTTTAAACAGAAAGTAACATTAATGCTAATGGACCAGGGGCCGGCAAGAAAACACTTAGGCGATGCCTTTAAACCGGACCCCAGTAGCAGTAGCTTTCGCCGGCCCACTGGCGAAATGAACATCGCATCAGGCTGTCCGCTTTTTGTGGCTCAGACTGTGCTAGAAAATGGAACCTATATCAAAGACGACACCATCTTTATAAAAGTGACTGTAGACACTTCAGACCTCCCTGACCCTTGAGTTCAACTTCAGCGGGTCCAACTAAAATCAAGAGTCACGCAGAGCCCCTTCCAGCCAAGACTTCAGAGGGCGATGCTGAACAAGGAGCATCCCACAAGTGTGGGGTTCTAACAGACCAAATCAGGAGTTTGGGCTCGTGTGATGGCGTGCTCTTCTGGAAACAACAGTGCCTTGCTGGGCTAGATGGTTACAGCCTTTAAGAGGAGCACAGAGTAGACGAAATCTCCCAAGTCAACCACATCTCAAATGCAGCGAAGAGTAAGACGTCAACTCTAATCCAAGAGACATTCTCGAGGAAAAACAAAAGTGAATGGTTACTAGATCAGATTCCCAACCtcgttcctggaggcacaccgaCAGTACACATTTTAAACTTGTCTGGCTCTTAATCTAATCCGGAAATGTAAGGAAGATGGTGTACTTTTAAGTGTGTGTCCAGTAAAATGGTTGGCACGGTTGATTAACATCCAGCCCAAAGTGAAA

Function

symbol description
traf3 Predicted to enable tumor necrosis factor receptor binding activity and ubiquitin protein ligase binding activity. Acts upstream of or within response to yeast. Predicted to be located in cytoplasm. Predicted to be active in cytoplasmic side of plasma membrane. Human ortholog(s) of this gene implicated in brain disease. Orthologous to human TRAF3 (TNF receptor associated factor 3).

GO:

id name namespace
GO:0045087 innate immune response biological_process
GO:0042981 regulation of apoptotic process biological_process
GO:0070534 protein K63-linked ubiquitination biological_process
GO:0032088 negative regulation of NF-kappaB transcription factor activity biological_process
GO:0046330 positive regulation of JNK cascade biological_process
GO:0033209 tumor necrosis factor-mediated signaling pathway biological_process
GO:0001817 regulation of cytokine production biological_process
GO:0050688 regulation of defense response to virus biological_process
GO:0043122 regulation of I-kappaB kinase/NF-kappaB signaling biological_process
GO:0001878 response to yeast biological_process
GO:0008063 Toll signaling pathway biological_process
GO:0007165 signal transduction biological_process
GO:0009898 cytoplasmic side of plasma membrane cellular_component
GO:0005737 cytoplasm cellular_component
GO:0098802 plasma membrane signaling receptor complex cellular_component
GO:0046872 metal ion binding molecular_function
GO:0004842 ubiquitin-protein transferase activity molecular_function
GO:0005164 tumor necrosis factor receptor binding molecular_function
GO:0031625 ubiquitin protein ligase binding molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
ko04064 NF-kappa B signaling pathway
ko04668 TNF signaling pathway
ko04620 Toll-like receptor signaling pathway
ko04621 NOD-like receptor signaling pathway
ko04622 RIG-I-like receptor signaling pathway
ko04657 IL-17 signaling pathway
ko05200 Pathways in cancer
ko05203 Viral carcinogenesis
ko05222 Small cell lung cancer
ko05161 Hepatitis B
ko05160 Hepatitis C
ko05171 Coronavirus disease - COVID-19
ko05164 Influenza A
ko05162 Measles
ko05168 Herpes simplex virus 1 infection
ko05167 Kaposi sarcoma-associated herpesvirus infection
ko05169 Epstein-Barr virus infection
ko05165 Human papillomavirus infection
ko05417 Lipid and atherosclerosis

ZFIN:

id description
ZDB-GENE-040801-257 Predicted to enable tumor necrosis factor receptor binding activity and ubiquitin protein ligase binding activity. Acts upstream of or within response to yeast. Predicted to be located in cytoplasm. Predicted to be active in cytoplasmic side of plasma membrane. Human ortholog(s) of this gene implicated in brain disease. Orthologous to human TRAF3 (TNF receptor associated factor 3).

Ensembl:

ensembl_id ENSDARG00000022000

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00023998 True 2465 mRNA 0.50 11 29227502 29249258

Neighbor

gene id symbol gene type direction distance location
XLOC_012176 NA coding downstream 2591 29216066 ~ 29224911 (-)
XLOC_012175 ehd4 coding downstream 13792 29195962 ~ 29213710 (-)
XLOC_012174 sptbn5 coding downstream 33283 29124190 ~ 29194219 (-)
XLOC_012173 foxg1a coding downstream 108140 29117027 ~ 29119362 (-)
XLOC_012172 NA coding downstream 204823 28921572 ~ 29022679 (-)
XLOC_012178 rcor1 coding upstream 2404 29251662 ~ 29271359 (-)
XLOC_012179 AL845481.1 coding upstream 23705 29272963 ~ 29273081 (-)
XLOC_012180 tecpr2 coding upstream 33605 29282863 ~ 29312506 (-)
XLOC_012181 ush2a coding upstream 127596 29376854 ~ 29771639 (-)
XLOC_012182 AL928842.1 coding upstream 387947 29637205 ~ 29637321 (-)
XLOC_012166 BX465838.2 non-coding downstream 574990 28643458 ~ 28652512 (-)
XLOC_012165 BX465838.1 non-coding downstream 603326 28624048 ~ 28624176 (-)
XLOC_012163 BX465838.4 non-coding downstream 696920 28530467 ~ 28530582 (-)
XLOC_012183 CT027582.2 non-coding upstream 472827 29722085 ~ 29723213 (-)
XLOC_012185 CR377229.1 non-coding upstream 726751 29976009 ~ 30054157 (-)
XLOC_012186 NA non-coding upstream 828073 30077331 ~ 30082713 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000189_02080315_02089268 TRAF3 coding CI01000189 null 2079637 ~ 2089268 (-)
tiger barb (Puntius tetrazona) G129322 NA non-coding NC_056716.1 CM032085.1 25392548 ~ 25394247 (-)