XLOC_008273 (rnf169)


Basic Information

Item Value
gene id XLOC_008273
gene name rnf169
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 4969128 ~ 4985077 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00016646
tgtatttgtCGCTCCACAGCTGCACGTGACGTCATGGCCGGGCGGGGCTTGTTTTCAAACCCAGGCACATACCAATGAAGATGGCGGCGGTGGGGTCCGCCAAATCCACTGGACCGGGGCAGAGAAGCAAAAGCAGGCCTGGCGCGCTCTCAGCTCCGCTGTCTCTGGAGGAGGCTCGGTGCCCAGTGTGCTCGGAGATACTCCTGGAGCCGGTCACGATGCCGTGCGGCCACTCGGTGTGCCTGCATTGTTTCCAGCGGACGGTGAAGTTGATCAGCCTGTGCTGTCCGCTGTGCCGGTTGCGAGTGTCCAGCTGGGCCCGTAAACAGTCCCGGGAGAAGAGCCTGGTCAACGCCGAACTGTGGGAGCTCGTTCGGCTCAGCCACCCAGAGCGCTGCAAGCGGAGGATGGAGCAGCGGGACGGAGAGATCCCGGACGGGGaaatatttcggGCACCTGTACCAGTTCATAAGGTTGGAGAAATGCGTCAAGAGTACGAGAAGCAAAAGATGAAGagtGGACGCAGTGAAGAAAccgatgaaagaaagaaaaaaatgcatataaaagaaGAGTGTGTGCTGCTGAAACATTGTCAATATCCTTTTTGTGGAGTGTCAGACTCTGAGAATGAAGAGCCGGTAGGAAGGAGGACCAGACACGTTTCAGCATTTGTACGAAAAACAAGATGCTCACCTGCCTTCAACAAAAGTTGTCTTCATAGCAGTGCTGCTCAGAGGAGCAGGAGTTGTACGGATTCTGAAGATGGAAGAGGAAAAAGCAGAGGTCACACAAATCAAGCTGTTCCTGAAAAGGCTAACATCGCTCATAGTTACAACGCTGGAATCCTCCTGTCCTCTGAGAACAGCCGGTCCTTCTCAGCCCCTTTGCTCAGTCTAGATAAGAGACACCATTGGCGGGGCATCCACACCTCATCTGCCACCCTTGTGCTTCAGACAAAACCAGAGAGGTCCATTAGCCCCGAGAGCAACGACAGCATATCGGAAGAACTCAACCATTTCAAGCCTATCGTCTGCTCACCATGCACTCCGCCTAAAAGGTTGCCCGATGGGCGACTCTTGGAACCAATGATCGTAAAATCAACCCCCAGGAACTTGACCCGTGCTTTACACAAGTCCACAAGCTACGAGGCTAGTCCGACCATCTTGCAGAAGTGGAAGCAGATTGAAGTTGATCGTCAGTGCATCAAAGTGACCTCAAAAGGTACGGTTACAAGTCCGATCGCAGAGGATCTTAACCTTAAACTGAGTCCCGTCGAAGAACGGGACTGTCAACCATGCAGCTGTTCTGTAGCCAAGGACCGATTGCTGGATCTTCAGTGCATTTGTGGTTCAAATGCACACAAGTCAAAGAGTCGGAAGGATAAACCTATAATCTATAATAAGCGACGGCTTATATTTGATCCGTATAATAAAGGGGAAGAAAAAACACAAGTTGCAGCTCTGATCAAAACATTTGGAGATTCTTCAACCCCTAAAGCATGTAAGGAACTCTGTGAACCCTCAGAAATGGGTCCACCAATGCTTGACAGTAACGCTGGACATTGCAATCAAGGTACTGTAGACCCGGATCATAATATAAAGATAAATGAGCCTACCACTATGAGCTGTGTACTTAACAGACCTACCTCAAGAAGGGGCAAAAAAAGAAGCCAGAAAACCAAACACATGGAGGAAACTCTACAGACGAAAATATCCCGGACAAACCGCTATGACAGTCTTGATGATCTGATTGTCCAGAGAATGAGTCAAGAAAAGGAGGACCGAGAACTGGCTCTAAAGCTTCAAAGACAGTTTGACAGAGAGTGTAAAAAAGTGGACAGGCATAAAACAAGTCGTAACAAATATGAACTCCGGTCCTGGGGTTCCAAAGATGGGATAGTAGGATACAACACACGCAGATCAGGAAGAGTCTCCAAACAAAATGAGCACTTTAACTATACCTGTTAAAGGGACCTACGGTTATGGTGGAATTTTATTGTAGTGTTTCGTCAGTCATAAACATTTTCTTTGGGCACTACAGAGACTTTCTAACATCTGTACAAGTATTGCTAGACAAggtatttactttttttgactTTAGTAGATGGGCTTCATCCAAAGCAACTTTCGTCAATCAAGTCCACCTAACGCAACCCAGGGTTAAGTGCCTTTACTTTAGGGCACAGTGGTCAACGAGCAGGATTGGGCAAGTTTCCCATTTATATGGATCAGCACCAAAAGCTGCAGTGTTTTGTTTCCAGCTTGGTAACTTTATCAAGCTTCTACTCAAAAGGAAAGGAACTATGGTATTTGGGGATACAAATTATGTACAGAAGTCTATACACCTTAAGAACTCTGTTAGTCAAGCCAGGACATATTACTTACAATCTTTCTGCTCATCACAATcacttttttcattgttttaagtTTATCATAGGACAGTTGttacaatttacattttaaacgaATGTTTTTAATTGTGGCATaaccctttttttgtttgtttcttcatttCTTGTTTCCAGTCCTTGGGACGTATCCTTAATTTACCCATAGATCAATCAGTTTTCTTTCCTTTTGGCTTACGAAATCCTTGGGGGAAGAGTAATATTATTCTAGCTTTAGGCCTGAAAACCACTCTACACAAGTACAAAGACGCAAATGCTTGGTCAACAGTTTGCAAGAAAAGTCTTATAGGTAAACTGATTCTTGTTGTACTATGGCGGAAATAAACCTAAGTATTGATAGGATTGCCTTCAAACAACTTTATTTTGTGCCATTAATcagaatgtattatttatttatttttggctagcTGTAAACATGTTAGTATTAAAGCAAGGCCATTTGAAGATTAGATTTACCCaaactgaaaattatgttattaatcaCTCACTCATAAATTGTTACAAACCTCTGATACCTTTGTTTGAGATACAAATTTGAATAAACTCTGAgtgctccctcatcctccacatTCAGCAACAGTCACAGGACTGTGTAAAATATACCAAAAAACTTTCTCAAAACAGACCTTTCAGTGGTTCAAACAGAATCTTATTAAGCTACGACAATCCTGCGCACACAACTAAAGATAGCTTTATTCAGCCATTTTTCCCCCTCATTAGGTATGTTTccataaaaaaatgctaattaactttATGCCAAAACtgaattatcgcataaaagacatacgaataaagcagcgtttccatccaacaagtgaaagtgaacaaaatcgtcacttcctgattatcttgCGCCAAAATCAACattaaaaacggaatttgctgtggtaggagaagctgcgtgaatcttttcttcatttattaaatgacttgtgcctcagaaggcaatcctgacatgctATGAATGTGCGGTGGCGTTTTAAaggtaattatttatataatagcaCTAACACTGTAATGTTTAAGGCGtttcagaatgaccaaaacaacatttccgatgttttacaatgtactcagcctgctggtttattcattcgatcatattttttttatcatcacataatGTCTTGTAACAAAATCACAGGAccttttttatgcacatactggaatttgttctttaaaaatgtttccattgcagtttatgcacatcttttcttatcgaataaaaagttctGCGCATTTTACCTGTTCGATCTaccttttttatgtgcatatccaaaatgcgcataaaaataggtgaatggaaatgTAGCTAGTGTCAGTGTAGGGCACACATTCGCGAGAGTGCTCTGTATACgtattaatattttgatttatgtgCACTCAAAAGGAATCTCGTAGCTTCATTAATGGATCGATTAAACCACTGATGAGGCAAATGGTTTATTTTtagaatgttttttcttctggactttgaacaagcTGGAACTGTTGATATCTATGGAGAATAAGGAAGCTCTttgattttatgtaaaatatcttaatttgtattccAAACTTAAGACAAACAAAGGTCTCGTGAACGACAtgtgggtgagtaattaatagccATACTTTTAATTTCTAGGACAACTTAACCTTTCAAGATAGCCTCTATGAACAATATTGCGACACACAGGATTCTGTTTACTGCACTTctcatttatttctatattagcCGCAAGCAGAGACAGTTTTAACGATGTCAAAGCATTTTTGATTGGTTTATGAGGTAACTGGTATGCTTTGCGTCACTGTTTGTTGCTGTATTTACTAAATGGGTGCAAGAAACATGGTTATAAGTAGTTCACCAGCAAAACGGAGAACTTAGTAGACAGTGGTTATAGCCAACGACTGCTATAGTGCCCCTTGTGGCACTGCTGAGAATGCCTCAGTTGTgttgtattttatgtattaaatagCTGGTATTTGCGTTCACATGTTTTGTGTATAGTATGTTTGGGGCCTAAATGTACATGTTTTACATCATTAATTAAATTGCTATAAAAACAGTTTCAAATGACAATTTTAAGAGATATTAGTCGACAATATTAACATAGTCGaaattggttttatttaaactttcCAAACTTTAATAAATTATGATTCTGATTGAAATTTTATaaccaaataaacatatttggaGACTTCTGTAAAAGATTTGCACGTAACACCTCTAGGAAAAATCTAGCATGCttcatttggcaaaaaaaaaaaaacatttcttaaatcagttttatttttctgtcattGTATTTTCGGAGTTTGTCCATATGTCAAGTTTTAGATTAATGTTGACGTAATTGTAAGACACTACTCTTAAGGGCTACTTTCATTTCAGGACTTTGTTTACTAGAGAGATCTATTTTGTGACTTGCGTCTGCCAAGAAAGCTTTAATCATCTTATTTTTGCTGAAAAAATGATGCCCAGTTGGACCACATGTATATGCGCATGCATTTACTTTCACCTTCATTTACCTTGATCCTATTTTTTCGTTCCTTTTTCTTACTGATTATTACATCCTGTAAACTTCTTGGTAATGTGCCAACATTTTCCTGTAGGTAATTTAAGTTTTTACACAACTCTGTTGGTTACAGGATGTACTATTGGAAAAAGATCAGATTGATTTTTATGCATTACTGTACTATTTTGGAAATACGACTGTACGGCTGTATTGATACTGATGCAAAGATGATAGTACAGATTGTTTCTGACCGGCTTTCAAAGCACTTGGATTGTCTTCCATTGTTGAAAGGTATTGCTGGATTTAAAAGAGAATATGTTTGAATTCAGTGGAGATGTAAAGCAcacatatttattatattgtaaaaaaaaatgtcatgtttgtttttaaattttgccTTTTACCAATTCACGTCATCAGAACACTGAGCATTTCTAGCTGACATGACAGGAATTAAATGTAGCATCCATAAAAAAAA

Function

symbol description
rnf169 Predicted to enable K63-linked polyubiquitin modification-dependent protein binding activity and nucleosome binding activity. Predicted to be involved in cellular response to DNA damage stimulus and negative regulation of double-strand break repair. Predicted to be located in nucleoplasm and site of double-strand break. Orthologous to human RNF169 (ring finger protein 169).

GO:

id name namespace
GO:0006974 cellular response to DNA damage stimulus biological_process
GO:2000780 negative regulation of double-strand break repair biological_process
GO:0016567 protein ubiquitination biological_process
GO:0035861 site of double-strand break cellular_component
GO:0005634 nucleus cellular_component
GO:0005654 nucleoplasm cellular_component
GO:0031491 nucleosome binding molecular_function
GO:0070530 K63-linked polyubiquitin modification-dependent protein binding molecular_function
GO:0016740 transferase activity molecular_function
GO:0046872 metal ion binding molecular_function

KEGG:

id description
ko04121 Ubiquitin system
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-030131-4336 Predicted to enable K63-linked polyubiquitin modification-dependent protein binding activity and nucleosome binding activity. Predicted to be involved in cellular response to DNA damage stimulus and negative regulation of double-strand break repair. Predicted to be located in nucleoplasm and site of double-strand break. Orthologous to human RNF169 (ring finger protein 169).

Ensembl:

ensembl_id ENSDARG00000042825

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00016646 True 5389 mRNA 0.40 6 4969128 4985077

Neighbor

gene id symbol gene type direction distance location
XLOC_008272 si:dkey-35i13.1 coding upstream 333309 4632782 ~ 4635819 (+)
XLOC_008271 NA coding upstream 414700 4553896 ~ 4554428 (+)
XLOC_008270 NA coding upstream 437163 4528549 ~ 4531965 (+)
XLOC_008269 NA coding upstream 648113 4313091 ~ 4321015 (+)
XLOC_008268 NA coding upstream 1014437 3949880 ~ 3954691 (+)
XLOC_008274 spcs2 coding downstream 3112 4988189 ~ 4999810 (+)
XLOC_008275 abcg1 coding downstream 43531 5028608 ~ 5074983 (+)
XLOC_008276 mxf coding downstream 101261 5086338 ~ 5106171 (+)
XLOC_008277 pgm2l1 coding downstream 131102 5116179 ~ 5148793 (+)
XLOC_008278 NA coding downstream 271424 5256501 ~ 5256782 (+)
XLOC_008463 BX663520.1 misc downstream 16267114 21252191 ~ 21252282 (+)
XLOC_008264 NA non-coding upstream 1250745 3682312 ~ 3718383 (+)
XLOC_008289 NA non-coding downstream 483021 5468098 ~ 5471508 (+)
XLOC_008291 NA non-coding downstream 856480 5841557 ~ 5853342 (+)
XLOC_008292 BX088654.1 non-coding downstream 870034 5855111 ~ 5855225 (+)
XLOC_008297 NA non-coding downstream 1173932 6159009 ~ 6160503 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000092_01871020_01880095 NA coding CI01000092 null 1871020 ~ 1882078 (+)