XLOC_036250 (traf1)


Basic Information

Item Value
gene id XLOC_036250
gene name traf1
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007119.7
NCBI id CM002892.2
chromosome length 54304671
location 12408840 ~ 12432685 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00070864
GATTGTATCGTGAACACTTCAGAGTGTAGGCGGAGTCGAGCAATAGTGAGCACTGCACTTCTCGTTTTGTTTTTCTAGTATGCTCTCTAGATTTCAAGACACAGCCACACTGTGTGTAAGCGCGTTTCTTCTACTTTCACTTATAACTCCACAAACtatctttctatttttattattttaagcttttttcaaaatattatcaGCAAGATTAGACACAGCGTGGTTGATAAACACGCGGAAAAAGCGCAGTTTCCGGGTGTTTAAGGGGGAAACCCGTGGTGTTTTTCGACCGTGGGTATATCACCAAAAAGTCAAAAGCATATCAACATGTCATCATAACGTGCTGCTGGTACAGACTCTTCATCTTAACCCCTATAATGGCTTCTGGTTCAGCTTCAGACCCGTCGTTAAACGGTGTTTCGTCCACACCGGATGAGAACGAGTATCCGTCAGGTTTCCCTCAGAGCATCTGCGATGAGGTGCCGAAAGATAAATACTTGTGTAGCAACTGCAATAATGTTTTGAATAAAGCGCGTCAAACGGTGTGCGGTCACCGATACTGCCTCGCCTGCGTCAACTGGCTGGTCAGaAACAACAAGGACCTAGTGTGCACAAAATGTAAAGGAGAGGATTCCAATGTTGAGAGTGACACTAGCGTACTGACTCCTAACCAATTCTTCAATGATGTGGCTATCAATAAGGAAATTTTGGATCTGAAAGTTCACTGTGCTAACCAAGGCTGCCCCTGGAGAAGCACCCTAAAAAATTTTGagGACCACCAGAGTCAGTGTGAATATGCCCTGATCCCTTGTAACATTGGCTGTGGCATAATGGTTCAGAGGAAGACACTGGCCACACATCTGGAAAGCGGCTGTCCCAACAACAAGACCGCCTGTCCCTCCTGTACAAGTGTTCTGACACCCAGAGAACTCCAGAAGCATGTATGTCCCAGTTCTGGTGATAAGAAGACAGCAAAGACGGATAAAAAGCAAAAGAATAATCAGCCGGCCAACTCAAAAAAGAAAGAACCATGCATTTTCTCAGACGTTGGTTGTCCTTTTAAGGGCAACCCAGACAAAGTAAAAGAACATGAGTCTTGCAGTCATGCGGGTCACCTGCAGCTTCTACTGGACGTGACCAGGGCTCTTCAGCGAACACTGAACTCAGCAACTGAGCGAGTCTACCAGGACAGCCCTGTTTTTCTTGAGCCTGGACCAAATGGCTCTTCACTCGCTCCTCAGGCTGATGGTGACATAGAAACGGATGGAGGAGATCCGGGAGTGAGTGACAAGGCCTTCAGCCTCCACGATGATCAGGTTGAGCTCGCCGCCGGCCAGCAGCTGGACGCCCTGCAGCAAAAAGTGCAGGTCATAGAGAACATCATTTCCGCTCTGAACCGAGAGGTAGAGAAGACACAGATCAGTGTGGTGGCAATGAATAGAGACCATTGCAACAGCCAGCAGATCATTCAGCATTTGGAAGCTACGGTAGCGGAGCTGCAGCAGAGGCTGGTCAGGAAAGACATTCTCATCAGTTCTTTGCAGCAGTCTATCAGCGCCCAGCAGGACGTCTCGTATGATGGCACCTTTTACTGGCGGGTGTGTGATGTCAGCCAGAAACAGAGAGAGGCTGCCAACAGCCAAAAGATCAGTCAGTACTCACCAGCTTTCTACACCGCCAGGTATGGATTTAAAGTGTGTTTGCGGCTCTATTTGAACGGAGACGGAGCTGGAAAGGGATCACACATCTCTCTTTTCTTTGTTATAATGAAAGGAGAATATGACCCCATTCTCTCATGGCCATTCAAACACAAGGTAACGTTCTTCCTCCTAGATCAAAACCAGAGGGAGCACGTCATCGATGCTTTCCGTCCCGACCTGTCCTCCATGTCTTTCCATCAGCCTGTCAGTGATATGAATGTGGCCAGCGGCTGCCCCCTGTTCTTCCCTCTGAAGAAACTGAGGTCGCCCAAACATGCTTACTGCAAAGACGACACCATCTACATTAAGTGCGTGGTGGACACCTCTTCCTGAAGCACCCAGGTAATGGGGACGGGACACATACTGTACAAGAGCAGAAAAAAACTGGATCTGAGGAGAACTGTAGAAGAACAAACCGCCAAATATTCATGAGCTGAAAAGTTTCATCTTTTAGTGCAtgaataaaatcatattttttagaTTGACACCTGGCTCTTAATGTTTTAAACATggattcttt
>TCONS_00070865
GCTCTCTAGATTTCAAGACACAGCCACACTGTGTaAACAACAAGGACCTAGTGTGCACAAAATGTAAAGGAGAGGATTCCAATGTTGAGAGTGACACTAGCGTACTGACTCCTAACCAATTCTTCAATGATGTGGCTATCAATAAGGAAATTTTGGATCTGAAAGTTCACTGTGCTAACCAAGGCTGCCCCTGGAGAAGCACCCTAAAAAATTTTGagGACCACCAGAGTCAGTGTGAATATGCCCTGATCCCTTGTAACATTGGCTGTGGCATAATGGTTCAGAGGAAGACACTGGCCACACATCTGGAAAGCGGCTGTCCCAACAACAAGACCGCCTGTCCCTCCTGTACAAGTGTTCTGACACCCAGAGAACTCCAGAAGCATGTATGTCCCAGTTCTGGTGATAAGAAGACAGCAAAGACGGATAAAAAGCAAAAGAATAATCAGCCGGCCAACTCAAAAAAGAAAGAACCATGCATTTTCTCAGACGTTGGTTGTCCTTTTAAGGGCAACCCAGACAAAGTAAAAGAACATGAGTCTTGCAGTCATGCGGGTCACCTGCAGCTTCTACTGGACGTGACCAGGGCTCTTCAGCGAACACTGAACTCAGCAACTGAGCGAGTCTACCAGGACAGCCCTGTTTTTCTTGAGCCTGGACCAAATGGCTCTTCACTCGCTCCTCAGGCTGATGGTGACATAGAAACGGATGGAGGAGATCCGGGAGTGAGTGACAAGGCCTTCAGCCTCCACGATGATCAGGTTGAGCTCGCCGCCGGCCAGCAGCTGGACGCCCTGCAGCAAAAAGTGCAGGTCATAGAGAACATCATTTCCGCTCTGAACCGAGAGGTAGAGAAGACACAGATCAGTGTGGTGGCAATGAATAGAGACCATT
>TCONS_00070866
AGTATGCTCTCTAGATTTCAAGACACAGCCACACTaAACAACAAGGACCTAGTGTGCACAAAATGTAAAGGAGAGGATTCCAATGTTGAGAGTGACACTAGCGTACTGACTCCTAACCAATTCTTCAATGATGTGGCTATCAATAAGGAAATTTTGGATCTGAAAGTTCACTGTGCTAACCAAGGCTGCCCCTGGAGAAGCACCCTAAAAAATTTTGagGACCACCAGAGTCAGTGTGAATATGCCCTGATCCCTTGTAACATTGGCTGTGGCATAATGGTTCAGAGGAAGACACTGGCCACACATCTGGAAAGCGGCTGTCCCAACAACAAGACCGCCTGTCCCTCCTGTACAAGTGTTCTGACACCCAGAGAACTCCAGAAGCATGTATGTCCCAGTTCTGGTGATAAGAAGACAGCAAAGACGGATAAAAAGCAAAAGAATAATCAGCCGGCCAACTCAAAAAAGAAAGAACCATGCATTTTCTCAGACGTTGGTTGTCCTTTTAAGGGCAACCCAGACAAAGTAAAAGAACATGAGTCTTGCAGTCATGCGGGTCACCTGCAGCTTCTACTGGACGTGACCAGGGCTCTTCAGCGAACACTGAACTCAGCAACTGAGCGAGTCTACCAGGACAGCCCTGTTTTTCTTGAGCCTGGACCAAATGGCTCTTCACTCGCTCCTCAGGCTGATGGTGACATAGAAACGGATGGAGGAGATCCGGGAGTGAGTGACAAGGCCTTCAGCCTCCACGATGATCAGGTTGAGCTCGCCGCCGGCCAGCAGCTGGACGCCCTGCAGCAAAAAGTGCAGGTCATAGAGAACATCATTTCCGCTCTGAACCGAGAGGTAGAGAAGACACAGATCAGTGTGGTGGCAATGAA

Function

symbol description
traf1 Predicted to enable tumor necrosis factor receptor binding activity and ubiquitin protein ligase binding activity. Predicted to be involved in several processes, including positive regulation of NF-kappaB transcription factor activity; regulation of intracellular signal transduction; and tumor necrosis factor-mediated signaling pathway. Predicted to act upstream of or within regulation of apoptotic process and signal transduction. Predicted to be located in cytoplasm. Predicted to be active in cytoplasmic side of plasma membrane. Orthologous to human TRAF1 (TNF receptor associated factor 1).

GO:

id name namespace
GO:0042981 regulation of apoptotic process biological_process
GO:0070534 protein K63-linked ubiquitination biological_process
GO:0046330 positive regulation of JNK cascade biological_process
GO:0033209 tumor necrosis factor-mediated signaling pathway biological_process
GO:0043122 regulation of I-kappaB kinase/NF-kappaB signaling 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: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
ko04210 Apoptosis
ko05200 Pathways in cancer
ko05202 Transcriptional misregulation in cancer
ko05203 Viral carcinogenesis
ko05222 Small cell lung cancer

ZFIN:

id description
ZDB-GENE-071120-4 Predicted to enable tumor necrosis factor receptor binding activity and ubiquitin protein ligase binding activity. Predicted to be involved in several processes, including positive regulation of NF-kappaB transcription factor activity; regulation of intracellular signal transduction; and tumor necrosis factor-mediated signaling pathway. Predicted to act upstream of or within regulation of apoptotic process and signal transduction. Predicted to be located in cytoplasm. Predicted to be active in cytoplasmic side of plasma membrane. Orthologous to human TRAF1 (TNF receptor associated factor 1).

Ensembl:

ensembl_id ENSDARG00000069482

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00070864 False 2220 mRNA 0.47 10 12408840 12432685
TCONS_00070865 False 894 mRNA 0.49 7 12423064 12432604
TCONS_00070866 True 884 mRNA 0.49 7 12423075 12432609

Neighbor

gene id symbol gene type direction distance location
XLOC_036249 phf19 coding downstream 5763 12340247 ~ 12403077 (-)
XLOC_036248 dab2ipa coding downstream 144319 12134127 ~ 12264521 (-)
XLOC_036247 NA coding downstream 283466 12029473 ~ 12125374 (-)
XLOC_036246 med27 coding downstream 420775 11884671 ~ 11988065 (-)
XLOC_036245 rapgef1a coding downstream 573233 11779547 ~ 11835607 (-)
XLOC_036251 NA coding upstream 18766 12451451 ~ 12669412 (-)
XLOC_036252 CU639468.2 coding upstream 180087 12612772 ~ 12612888 (-)
XLOC_036253 NA coding upstream 254006 12686691 ~ 12710224 (-)
XLOC_036254 si:dkey-104n9.1 coding upstream 410615 12843300 ~ 12847486 (-)
XLOC_036255 slc2a6 coding upstream 421420 12854105 ~ 12867434 (-)
XLOC_036229 FO834835.1 non-coding downstream 1968996 10439725 ~ 10439844 (-)
XLOC_036228 NA non-coding downstream 2081784 10323325 ~ 10327056 (-)
XLOC_036227 CT573497.2 non-coding downstream 2356707 10052019 ~ 10052133 (-)
XLOC_036222 NA non-coding downstream 3376511 9029054 ~ 9032329 (-)
XLOC_036261 BX119975.1 non-coding upstream 806288 13238973 ~ 13239092 (-)
XLOC_036263 NA non-coding upstream 869994 13302679 ~ 13306048 (-)

Expression


Co-expression Network