XLOC_017419 (sod2)


Basic Information

Item Value
gene id XLOC_017419
gene name sod2
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007131.7
NCBI id CM002904.2
chromosome length 55201332
location 30937934 ~ 30947547 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00034627
TTTTCGCTGTCACAAAATGGCGGAGAAGGAAGAGACTCTCCCTCTCCGAGAAGCAGCACTTTATCTGAAATAGCCGTATTAAATCCCTACCACTTACCAGAGCCGGTTCGCCTCGACCAGAATGACACGTATGTCTTCCAATGTGCGCTGCAACCTTCAACCCCCTCTTAGGTGCTGTGACCTCCAGACAGAAGCACGCTCTCCCTGACCTCACATATGACTATGGTGCACTTGAGCCTCACATCTGTGCTGAGATTATGCAGCTTCATCACAGCAAGCACCATGCAACATATGTCAACAACCTCAATGTCACAGAGGAGAAATATCAAGAGGCTCTGGCCAAGGGTGATGTGACAACCCAAGTCTCCCTTCAGCCTGCATTGAAATTTAATGGAGGTGGTCATATTAATCATACCATATTCTGGACAAATCTGTCACCCAATGGCGGTGGAGAACCACAGGGTGAGCTGTTGGAGGCCATAAAGCGTGACTTTGGCTCATTTCAGAAGATGAAAGAGAAGATATCAGCTGCCACCGTGGCTGTTCAGGGCTCAGGCTGGGGCTGGCTGGGCTTTGAAAAGGAGAGCGGAAGATTGAGGATTGCAGCGTGTGCTAACCAAGACCCTTTGCAAGGGACCACAGGT
>TCONS_00034628
TCCGCCATGACCAGCGTGTGCGCGATGTTCAGCCGCACAGCATCAGTGTGTTCGTTCGCGCGAGCGCTGAGGAGGAGGAGCACGTTCCTGTCACTGTGTTGCCAGGTGCGCTGCAACCTTCAACCCCCTCTTAGGTGCTGTGACCTCCAGACAGAAGCACGCTCTCCCTGACCTCACATATGACTATGGTGCACTTGAGCCTCACATCTGTGCTGAGATTATGCAGCTTCATCACAGCAAGCACCATGCAACATATGTCAACAACCTCAATGTCACAGAGGAGAAATATCAAGAGGCTCTGGCCAAGGGTGATGTGACAACCCAAGTCTCCCTTCAGCCTGCATTGAAATTTAATGGAGGTGGTCATATTAATCATACCATATTCTGGACAAATCTGTCACCCAATGGCGGTGGAGAACCACAGGGTGAGCTGTTGGAGGCCATAAAGCGTGACTTTGGCTCATTTCAGAAGATGAAAGAGAAGATATCAGCTGCCACCGTGGCTGTTCAGGGCTCAGGCTGGGGCTGGCTGGGCTTTGAAAAGGAGAGCGGAAGATTGAGGATTGCAGCGTGTGCTAACCAAGACCCTTTGCAAGGGACCACAGGTCTCATCCCACTGCTTGGGATAGATGTCTGGGAACATGCGTACTATCTCCAGTACAAGAATGTTAGACCGGACTATGTTAAAGCCATCTGGAATGTTGTAAACTGGGAGAATGTCAGCGAGCGTTTCCAAGCTgccaagaaataaataaattgcaccaCACTTGGGAGAGAAAAGAGAGCAACTGAGTGTCTATTTTGTACTTTCGAAGCGCACAATTAATCAGACCACGATACAGCTATCAAACAAAACTGAGGCTATTGTTTTTGACAAGCTATAATCCATACAGAACTGTGCACTGTAATGCGTAGTTTGCATTGAGTTATTGATGTACGataatgctttcagtgtattCAAATTAAAAGGTTATTTGAACAG
>TCONS_00034629
ATGTGGCGAATTTAGGTCTGTTGGTTGGTCGCTTGTATCACTGTGTGACGGACTAGAGCATGCTGTGCAGAGTCGGATATGTTCGGAGGTGCTGTGACCTCCAGACAGAAGCACGCTCTCCCTGACCTCACATATGACTATGGTGCACTTGAGCCTCACATCTGTGCTGAGATTATGCAGCTTCATCACAGCAAGCACCATGCAACATATGTCAACAACCTCAATGTCACAGAGGAGAAATATCAAGAGGCTCTGGCCAAGGGTGATGTGACAACCCAAGTCTCCCTTCAGCCTGCATTGAAATTTAATGGAGGTGGTCATATTAATCATACCATATTCTGGACAAATCTGTCACCCAATGGCGGTGGAGAACCACAGGGTGAGCTGTTGGAGGCCATAAAGCGTGACTTTGGCTCATTTCAGAAGATGAAAGAGAAGATATCAGCTGCCACCGTGGCTGTTCAGGGCTCAGGCTGGGGCTGGCTGGGCTTTGAAAAGGAGAGCGGAAGATTGAGGATTGCAGCGTGTGCTAACCAAGACCCTTTGCAAGGGACCACAGGTCTCATCCCACTGCTTGGGATAGATGTCTGGGAACATGCGTACTATCTCCAGTACAAGAATGTTAGACCGGACTATGTTAAAGCCATCTGGAATGTTGTAAACTGGGAGAATGTCAGCGAGCGTTTCCAAGCTgccaagaaataaataaattgcaccaCACTTGGGAGAGAAAAGAGAGCAACTGAGTGTCTATTTTGTACTTTCGAAGCGCACAATTAA
>TCONS_00034630
TTAGGTCTGTTGGTTGGTCGCTTGTATCACTGTGTGACGGACTAGAGCATGCTGTGCAGAGTCGGATATGTTCGGAGGTGCGCTGCAACCTTCAACCCCCTCTTAGGTGCTGTGACCTCCAGACAGAAGCACGCTCTCCCTGACCTCACATATGACTATGGTGCACTTGAGCCTCACATCTGTGCTGAGATTATGCAGCTTCATCACAGCAAGCACCATGCAACATATGTCAACAACCTCAATGTCACAGAGGAGAAATATCAAGAGGCTCTGGCCAAGGGTGATGTGACAACCCAAGTCTCCCTTCAGCCTGCATTGAAATTTAATGGAGGTGGTCATATTAATCATACCATATTCTGGACAAATCTGTCACCCAATGGCGGTGGAGAACCACAGGGTGAGCTGTTGGAGGCCATAAAGCGTGACTTTGGCTCATTTCAGAAGATGAAAGAGAAGATATCAGCTGCCACCGTGGCTGTTCAGGGCTCAGGCTGGGGCTGGCTGGGCTTTGAAAAGGAGAGCGGAAGATTGAGGATTGCAGCGTGTGCTAACCAAGACCCTTTGCAAGGGACCACAGGTCTCATCCCACTGCTTGGGATAGATGTCTGGGAACATGCGTACTATCTCCAGTACAAGAATGTTAGACCGGACTATGTTAAAGCCATCTGGAATGTTGTAAACTGGGAGAATGTCAGCGAGCGTTTCCAAGCTgccaagaaataaataaattgcaccaCACTTGGGAGAGAAAAGAGAGCAACTGAGTGTCTATTTTGTACTTTCGAAGCGCACAATTAATCAGACCACGATACAGCTATCAAACAAAACTGAGGCTATTGTTTTTGACAAGCTATAATCCATACAGAACTGTGCACTGTAATGCGTAGTTTGCATTGAGTTATTGATGTACGataatgctttcagtgtattCAAATTAAAAGGTTATTTGAACAGTC

Function

symbol description
sod2 Enables superoxide dismutase activity. Acts upstream of or within several processes, including neutrophil homeostasis; removal of superoxide radicals; and response to methylmercury. Predicted to be located in mitochondrial matrix. Predicted to be active in mitochondrion. Is expressed in several structures, including digestive system; hematopoietic cell; musculature system; nervous system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in several diseases, including artery disease (multiple); autoimmune disease (multiple); lipid storage disease (multiple); liver disease (multiple); and optic nerve disease (multiple). Orthologous to human SOD2 (superoxide dismutase 2).

GO:

id name namespace
GO:0045087 innate immune response biological_process
GO:0001780 neutrophil homeostasis biological_process
GO:0046686 response to cadmium ion biological_process
GO:0055114 oxidation-reduction process biological_process
GO:0051597 response to methylmercury biological_process
GO:0006801 superoxide metabolic process biological_process
GO:0019430 removal of superoxide radicals biological_process
GO:0005739 mitochondrion cellular_component
GO:0004784 superoxide dismutase activity molecular_function
GO:0030145 manganese ion binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0016491 oxidoreductase activity molecular_function

KEGG:

id description
ko04013 MAPK signaling pathway - fly
ko04068 FoxO signaling pathway
ko04146 Peroxisome
ko04211 Longevity regulating pathway
ko04212 Longevity regulating pathway - worm
ko04213 Longevity regulating pathway - multiple species
ko05208 Chemical carcinogenesis - reactive oxygen species
ko05016 Huntington disease
ko05417 Lipid and atherosclerosis
ko02000 Transporters

ZFIN:

id description
ZDB-GENE-030131-7742 Enables superoxide dismutase activity. Acts upstream of or within several processes, including neutrophil homeostasis; removal of superoxide radicals; and response to methylmercury. Predicted to be located in mitochondrial matrix. Predicted to be active in mitochondrion. Is expressed in several structures, including digestive system; hematopoietic cell; musculature system; nervous system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in several diseases, including artery disease (multiple); autoimmune disease (multiple); lipid storage disease (multiple); liver disease (multiple); and optic nerve disease (multiple). Orthologous to human SOD2 (superoxide dismutase 2).

Ensembl:

ensembl_id ENSDARG00000042644

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00034627 False 644 processed_transcript 0.50 4 30937934 30943094
TCONS_00034628 False 982 processed_transcript 0.47 5 30938162 30947545
TCONS_00034629 False 780 processed_transcript 0.48 5 30939167 30947389
TCONS_00034630 True 956 mRNA 0.46 5 30939178 30947547

Neighbor

gene id symbol gene type direction distance location
XLOC_017418 NA coding upstream 31218 30902538 ~ 30906716 (+)
XLOC_017417 nhsl1b coding upstream 48114 30725778 ~ 30889820 (+)
XLOC_017416 acbd3 coding upstream 216072 30702531 ~ 30721862 (+)
XLOC_017415 ccr6a coding upstream 323415 30610547 ~ 30614519 (+)
XLOC_017414 fgfr1op coding upstream 327764 30578163 ~ 30610170 (+)
XLOC_017420 NA coding downstream 27487 30975034 ~ 30982570 (+)
XLOC_017421 otofa coding downstream 128941 31076488 ~ 31212556 (+)
XLOC_017422 pdia6 coding downstream 269948 31217495 ~ 31231122 (+)
XLOC_017423 apobb.1 coding downstream 322231 31269778 ~ 31285980 (+)
XLOC_017424 slc22a16 coding downstream 339809 31287356 ~ 31305503 (+)
XLOC_017412 NA non-coding upstream 506496 30387024 ~ 30431438 (+)
XLOC_017410 NA non-coding upstream 759719 30167134 ~ 30178215 (+)
XLOC_017409 NA non-coding upstream 853648 30031578 ~ 30084286 (+)
XLOC_017406 BX255963.2 non-coding upstream 1254379 29680929 ~ 29683555 (+)
XLOC_017425 BX511244.1 non-coding downstream 439508 31387055 ~ 31387171 (+)
XLOC_017426 BX927258.1 non-coding downstream 774705 31722252 ~ 31723497 (+)
XLOC_017430 BX842669.1 non-coding downstream 1284062 32231609 ~ 32240969 (+)
XLOC_017431 BX927123.1 non-coding downstream 1323360 32270907 ~ 32402360 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000325_07775362_07777824 SOD2.L, MGC80739, SOD2 coding CI01000325 null 7775362 ~ 7778055 (+)
rainbow trout (Oncorhynchus mykiss) G703826 sod2 non-coding NC_048572.1 CM023226.2 37782204 ~ 37792696 (+)