XLOC_008387 (traf4a)


Basic Information

Item Value
gene id XLOC_008387
gene name traf4a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 15516612 ~ 15593263 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00016798
GCGCTGTGGATGTTTCTCGTCCTCTCGGTTCATCAGCGAGCTCTAGCCTGCATTGACAGCCTCGTCGCCGGGTTTAAGCTGTCATCCTGACCGAGCCGTGTTGCTCGAAAAGAGGAAGCCGAGAGAAGAAACAATACCGAGGGTTGTGTGCCGTTGGCAAGTGAAGATCAGTTTTCAATACGCGGACTCTTGTTATTGCGGTGGAAAACAAACGACAGCTCCTATAGACGCTCCTCACTGAAGCAGCAGCAATGCCTGGCTTTGACTACAAGTTCCTGGAGAAGCCCAAGAGACGCTTTCAATGTCCTCTGTGTAGCAAAGCAATGAGGGAACCGGTCCAAGTTTCCACATGTGGACACCGATTCTGTGATACCTGCCTGCAGGAATTTCTCAGTGAGGGGGTCTTCAAGTGCCCGGAGGACCAGCTCCCATTGGATTACGCCAAGATCTATCCTGACCCTGAGCTGGAGCAGCAGATACTGGCGCTGCCCATCCGCTGTATTCACAGTGAAGAGGGCTGCCGCTGGACCGGCCAGATGAAACAGCTACAGAGCCACTTCTCGACCTGCGCCTTCAATGTGATCCCCTGCCCAAACCGCTGCTCCGTCAAGCTGACGCGCAGAGACCTGCCCGAACACCTGCAACACGACTGTCCCAAACGCAAGGTCAAGTGCGAGTTCTGCGGGAGTGAGTTCACAGGAGAGGCCTATGAGAACCACCAAGGCATCTGTCCGCAGGAGAGCGTTTACTGCGAAAACAAGTGTGGCGCAAGAATGATGCGGCGACTCCTGTCCCAGCACACCATGACGGAGTGTCCCAAACGCACACAGCCCTGCAAATACTGTGGCAAAGAGTTTGTGTACGACACAATCCAGAACCACCAGTATCACTGCCCTCGCTTCCCAGTGCAGTGCCCCAATCAGTGCGGCACCCCGAACATCGCCCGTGAGGACCTGGCCAACCACGTGAAGGAGAGCTGCGGCAGTGCGCTGGTCCTCTGCCCATTCAAAGAGGCCGGCTGCAAACACAGATGCCCAAAGATGGCGATTGGTCGGCATCTGGAAGAAAGCACTAAATCCCACCTGACCATGATGTGCAGTCTCGTGGGACGCCAGAGGCAGGAGATCTTGGAGCTCAGACGCGAAATGGAGGAGCTCTCGGTCAGTCACGATGGCGTCCTTATCTGGAAACTGACTGACTACTCACGCAAACTGCAGGAGGCCAAACTGCGCAACAACCACGAGTTCTTCAGTCCACCTTTCTACACGCACCGCTACGGGTATAAGCTTCAGGTGTCTGCTTTTCTAAATGGCAACGGCAGTGGTGAAGGCTCGCATCTGTCCATATACATCCGCGTGCTGCCCGGAGAATACGACAACCTGCTCGAGTGGCCCTTCTCATACAAGGTGACCTTCTCCATCCTCGACCAGAGCGACCCGTCACTATCCAAACCCCAGCACATCACCGAGACCTTCAACCCGGACCCCAACTGGAAGAACTTCCAGAAGCCCTGCAGCAGCCGCAACTCGCTGGACGAGAGCACGCTGGGCTTCGGCTACCCCAAATTCATCTCGCACGAGGAGATCAAGAAGAGGAACTACATCCGCGACAACTCCATCTTCCTCAAAGCTTCCATAGAGATCCCGCAAAAAATCATGGCCTGAGGGGTGAACATTTGTGTTGACGTTTTGTTTTATCCCCTCACAGAGCCCGTCTGTTTGGTGAATCGGCCAGATTTGAGGAGCCGTACCAAAATATGGAAGTGTTTCGCAAAGTCATCTCTTGGATTTGCTTTCTAACACTATTCTTCCTCAGTCTACAGCAACGCCTTTGGACATTCAGTAGTGCCTAgaacatttgttttaattcaactGTTATTTCTGGACTGTGAAAGGCTATTCCTAACCTTTTGAGATTGACAAGACGTACACTAACCCTCTTTCTACCCCGTTGAAAAATGGGTGTGAGCTCAACTGAACGTAGATTCAACTAGTTTAAGTAAACTAACAACGGCTGTGAACTAAATGTAGCTTAACTCGTTCGACTCCACGGTGCATTGTAGTACTTGCGTTTTTTTCAACACTAGTCGACGTTTGAGATGATTCCGAGCATGGCATTTTTGTCTAGCTTTTTTTTAATCCTTATCGTATGATGGAAATCAAACTCATGCAGTCGGATTCGGATCGAAAGCCATTGCGAGAGATTGTTTACATTCAGTTAGAGGGGGGAGATTCATTCATGGACCAGTTCTGTTGTTTTGTACTGTATCCTGTATTCTTAACCAGCGTGTGAGGGCTTGACGGTCGGATGAGCGAAAGGAACCAAAAGTTTTTGATATGTGAAAAATATAAATGTGAGCAGCATTGTGTCACAAAGCGAGGAGGATTTCGAATGTGAACTCTGGACTCGACATGCTCAGTTCTTTGTCTTGCTGTGGTGGATGATGAACCGAGAAATGAGCGGCGCTGGTAGTTTGGCTTACCTGTGCCTGGTAAAGCAGCATGTGAGCAAGTGGAGAGTTCTTCCATGTGCCTGAGGAAGATGAGCCttgtgcaatatggctgccattgcTCCATACAGACCAGTGGAGGACTTTTTGTTGAtccttattattataatatattatatgtgaATACtaataacgaaaaaaaaaatgcaaaaagcacATTCTTCTTCGCATTTAATCCCGCTACGATACCAGCTAATATTTTGCAACAATTTTGAGAAAACCTTggaagaaaaacaaaagaaaaaaagagactttttttGCTAAGATTCTGTATTTTACAAAGTACTTCGGATGTTTTCTACAATACTTTTTTGGCGATGAGTTTCGGGGGCTGTTCGTTGGACCCTTTTCACGTTTCACCTTCTGTGGCATTTGCTcggtcatttattatttttttgtctggtTTGGATTTTTGCATATTATGTCTGTATTATTTCCTCTTGAGAAGTATTTATTTTAAGGCGCCATAATCTGAGCTTGACAGGAAAATGGTGCAGATGTTTTTATATGTTAATTTGATGATTGCTTGTCAAATAtcacttgaaataaaataatgtctACAA

Function

symbol description
traf4a Predicted to enable tumor necrosis factor receptor binding activity and zinc ion binding activity. Acts upstream of or within establishment of epithelial cell apical/basal polarity; optic cup morphogenesis involved in camera-type eye development; and optic vesicle elongation. Predicted to be located in cytoplasm. Is expressed in several structures, including axial blood vessel; digestive system; immature eye; mesoderm; and nervous system. Orthologous to human TRAF4 (TNF receptor associated factor 4).

GO:

id name namespace
GO:0042981 regulation of apoptotic process biological_process
GO:0070534 protein K63-linked ubiquitination biological_process
GO:0007250 activation of NF-kappaB-inducing kinase activity biological_process
GO:0003405 optic vesicle elongation biological_process
GO:0046330 positive regulation of JNK cascade biological_process
GO:0002072 optic cup morphogenesis involved in camera-type eye development biological_process
GO:0033209 tumor necrosis factor-mediated signaling pathway biological_process
GO:0045198 establishment of epithelial cell apical/basal polarity biological_process
GO:0043122 regulation of I-kappaB kinase/NF-kappaB signaling biological_process
GO:0007165 signal transduction biological_process
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:0008270 zinc ion binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040308-1 Predicted to enable tumor necrosis factor receptor binding activity and zinc ion binding activity. Acts upstream of or within establishment of epithelial cell apical/basal polarity; optic cup morphogenesis involved in camera-type eye development; and optic vesicle elongation. Predicted to be located in cytoplasm. Is expressed in several structures, including axial blood vessel; digestive system; immature eye; mesoderm; and nervous system. Orthologous to human TRAF4 (TNF receptor associated factor 4).

Ensembl:

ensembl_id ENSDARG00000003963

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00016798 True 3072 mRNA 0.48 8 15516612 15593263

Neighbor

gene id symbol gene type direction distance location
XLOC_008386 nek8 coding upstream 2599 15479442 ~ 15514013 (+)
XLOC_008385 zgc:174895 coding upstream 56479 15456536 ~ 15460133 (+)
XLOC_008384 NA coding upstream 64096 15450803 ~ 15452516 (+)
XLOC_008383 zgc:92630 coding upstream 79082 15415623 ~ 15437530 (+)
XLOC_008382 dhrs11b coding upstream 108499 15403560 ~ 15408113 (+)
XLOC_008388 NA coding downstream 36243 15629506 ~ 15665686 (+)
XLOC_008389 si:ch211-33e4.3 coding downstream 178155 15771418 ~ 15775182 (+)
XLOC_008390 NA coding downstream 185725 15778988 ~ 15782552 (+)
XLOC_008391 tada2a coding downstream 192897 15786160 ~ 15819598 (+)
XLOC_008392 dusp14 coding downstream 262915 15856178 ~ 15877832 (+)
XLOC_008463 BX663520.1 misc downstream 5658928 21252191 ~ 21252282 (+)
XLOC_008379 NA non-coding upstream 165155 15347642 ~ 15351457 (+)
XLOC_008368 NA non-coding upstream 1266683 14249389 ~ 14249929 (+)
XLOC_008363 BX927244.2 non-coding upstream 1463146 14045121 ~ 14053466 (+)
XLOC_008361 CABZ01056919.1 non-coding upstream 1558762 13957722 ~ 13957850 (+)
XLOC_008393 NA non-coding downstream 393791 15987054 ~ 16018789 (+)
XLOC_008394 BX511308.1 non-coding downstream 442606 16035869 ~ 16045504 (+)
XLOC_008398 CR847990.1 non-coding downstream 925704 16518967 ~ 16519083 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000053_02817187_02856529 TRAF4A, TRAF4 coding CI01000053 null 2815866 ~ 2856648 (-)
bowfin (Amia calva) AMCG00005477 traf4,LOC106581191 coding CM030142.1 CM030142.1 2766546 ~ 2778432 (-)