RNA id: TCONS_00016646


Basic Information

Item Value
RNA id TCONS_00016646
length 5389
RNA type mRNA
GC content 0.40
exon number 6
gene id XLOC_008273
representative True

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
species zebrafish
(Danio rerio)

Sequence

tgtatttgtCGCTCCACAGCTGCACGTGACGTCATGGCCGGGCGGGGCTTGTTTTCAAACCCAGGCACATACCAATGAAGATGGCGGCGGTGGGGTCCGCCAAATCCACTGGACCGGGGCAGAGAAGCAAAAGCAGGCCTGGCGCGCTCTCAGCTCCGCTGTCTCTGGAGGAGGCTCGGTGCCCAGTGTGCTCGGAGATACTCCTGGAGCCGGTCACGATGCCGTGCGGCCACTCGGTGTGCCTGCATTGTTTCCAGCGGACGGTGAAGTTGATCAGCCTGTGCTGTCCGCTGTGCCGGTTGCGAGTGTCCAGCTGGGCCCGTAAACAGTCCCGGGAGAAGAGCCTGGTCAACGCCGAACTGTGGGAGCTCGTTCGGCTCAGCCACCCAGAGCGCTGCAAGCGGAGGATGGAGCAGCGGGACGGAGAGATCCCGGACGGGGaaatatttcggGCACCTGTACCAGTTCATAAGGTTGGAGAAATGCGTCAAGAGTACGAGAAGCAAAAGATGAAGagtGGACGCAGTGAAGAAAccgatgaaagaaagaaaaaaatgcatataaaagaaGAGTGTGTGCTGCTGAAACATTGTCAATATCCTTTTTGTGGAGTGTCAGACTCTGAGAATGAAGAGCCGGTAGGAAGGAGGACCAGACACGTTTCAGCATTTGTACGAAAAACAAGATGCTCACCTGCCTTCAACAAAAGTTGTCTTCATAGCAGTGCTGCTCAGAGGAGCAGGAGTTGTACGGATTCTGAAGATGGAAGAGGAAAAAGCAGAGGTCACACAAATCAAGCTGTTCCTGAAAAGGCTAACATCGCTCATAGTTACAACGCTGGAATCCTCCTGTCCTCTGAGAACAGCCGGTCCTTCTCAGCCCCTTTGCTCAGTCTAGATAAGAGACACCATTGGCGGGGCATCCACACCTCATCTGCCACCCTTGTGCTTCAGACAAAACCAGAGAGGTCCATTAGCCCCGAGAGCAACGACAGCATATCGGAAGAACTCAACCATTTCAAGCCTATCGTCTGCTCACCATGCACTCCGCCTAAAAGGTTGCCCGATGGGCGACTCTTGGAACCAATGATCGTAAAATCAACCCCCAGGAACTTGACCCGTGCTTTACACAAGTCCACAAGCTACGAGGCTAGTCCGACCATCTTGCAGAAGTGGAAGCAGATTGAAGTTGATCGTCAGTGCATCAAAGTGACCTCAAAAGGTACGGTTACAAGTCCGATCGCAGAGGATCTTAACCTTAAACTGAGTCCCGTCGAAGAACGGGACTGTCAACCATGCAGCTGTTCTGTAGCCAAGGACCGATTGCTGGATCTTCAGTGCATTTGTGGTTCAAATGCACACAAGTCAAAGAGTCGGAAGGATAAACCTATAATCTATAATAAGCGACGGCTTATATTTGATCCGTATAATAAAGGGGAAGAAAAAACACAAGTTGCAGCTCTGATCAAAACATTTGGAGATTCTTCAACCCCTAAAGCATGTAAGGAACTCTGTGAACCCTCAGAAATGGGTCCACCAATGCTTGACAGTAACGCTGGACATTGCAATCAAGGTACTGTAGACCCGGATCATAATATAAAGATAAATGAGCCTACCACTATGAGCTGTGTACTTAACAGACCTACCTCAAGAAGGGGCAAAAAAAGAAGCCAGAAAACCAAACACATGGAGGAAACTCTACAGACGAAAATATCCCGGACAAACCGCTATGACAGTCTTGATGATCTGATTGTCCAGAGAATGAGTCAAGAAAAGGAGGACCGAGAACTGGCTCTAAAGCTTCAAAGACAGTTTGACAGAGAGTGTAAAAAAGTGGACAGGCATAAAACAAGTCGTAACAAATATGAACTCCGGTCCTGGGGTTCCAAAGATGGGATAGTAGGATACAACACACGCAGATCAGGAAGAGTCTCCAAACAAAATGAGCACTTTAACTATACCTGTTAAAGGGACCTACGGTTATGGTGGAATTTTATTGTAGTGTTTCGTCAGTCATAAACATTTTCTTTGGGCACTACAGAGACTTTCTAACATCTGTACAAGTATTGCTAGACAAggtatttactttttttgactTTAGTAGATGGGCTTCATCCAAAGCAACTTTCGTCAATCAAGTCCACCTAACGCAACCCAGGGTTAAGTGCCTTTACTTTAGGGCACAGTGGTCAACGAGCAGGATTGGGCAAGTTTCCCATTTATATGGATCAGCACCAAAAGCTGCAGTGTTTTGTTTCCAGCTTGGTAACTTTATCAAGCTTCTACTCAAAAGGAAAGGAACTATGGTATTTGGGGATACAAATTATGTACAGAAGTCTATACACCTTAAGAACTCTGTTAGTCAAGCCAGGACATATTACTTACAATCTTTCTGCTCATCACAATcacttttttcattgttttaagtTTATCATAGGACAGTTGttacaatttacattttaaacgaATGTTTTTAATTGTGGCATaaccctttttttgtttgtttcttcatttCTTGTTTCCAGTCCTTGGGACGTATCCTTAATTTACCCATAGATCAATCAGTTTTCTTTCCTTTTGGCTTACGAAATCCTTGGGGGAAGAGTAATATTATTCTAGCTTTAGGCCTGAAAACCACTCTACACAAGTACAAAGACGCAAATGCTTGGTCAACAGTTTGCAAGAAAAGTCTTATAGGTAAACTGATTCTTGTTGTACTATGGCGGAAATAAACCTAAGTATTGATAGGATTGCCTTCAAACAACTTTATTTTGTGCCATTAATcagaatgtattatttatttatttttggctagcTGTAAACATGTTAGTATTAAAGCAAGGCCATTTGAAGATTAGATTTACCCaaactgaaaattatgttattaatcaCTCACTCATAAATTGTTACAAACCTCTGATACCTTTGTTTGAGATACAAATTTGAATAAACTCTGAgtgctccctcatcctccacatTCAGCAACAGTCACAGGACTGTGTAAAATATACCAAAAAACTTTCTCAAAACAGACCTTTCAGTGGTTCAAACAGAATCTTATTAAGCTACGACAATCCTGCGCACACAACTAAAGATAGCTTTATTCAGCCATTTTTCCCCCTCATTAGGTATGTTTccataaaaaaatgctaattaactttATGCCAAAACtgaattatcgcataaaagacatacgaataaagcagcgtttccatccaacaagtgaaagtgaacaaaatcgtcacttcctgattatcttgCGCCAAAATCAACattaaaaacggaatttgctgtggtaggagaagctgcgtgaatcttttcttcatttattaaatgacttgtgcctcagaaggcaatcctgacatgctATGAATGTGCGGTGGCGTTTTAAaggtaattatttatataatagcaCTAACACTGTAATGTTTAAGGCGtttcagaatgaccaaaacaacatttccgatgttttacaatgtactcagcctgctggtttattcattcgatcatattttttttatcatcacataatGTCTTGTAACAAAATCACAGGAccttttttatgcacatactggaatttgttctttaaaaatgtttccattgcagtttatgcacatcttttcttatcgaataaaaagttctGCGCATTTTACCTGTTCGATCTaccttttttatgtgcatatccaaaatgcgcataaaaataggtgaatggaaatgTAGCTAGTGTCAGTGTAGGGCACACATTCGCGAGAGTGCTCTGTATACgtattaatattttgatttatgtgCACTCAAAAGGAATCTCGTAGCTTCATTAATGGATCGATTAAACCACTGATGAGGCAAATGGTTTATTTTtagaatgttttttcttctggactttgaacaagcTGGAACTGTTGATATCTATGGAGAATAAGGAAGCTCTttgattttatgtaaaatatcttaatttgtattccAAACTTAAGACAAACAAAGGTCTCGTGAACGACAtgtgggtgagtaattaatagccATACTTTTAATTTCTAGGACAACTTAACCTTTCAAGATAGCCTCTATGAACAATATTGCGACACACAGGATTCTGTTTACTGCACTTctcatttatttctatattagcCGCAAGCAGAGACAGTTTTAACGATGTCAAAGCATTTTTGATTGGTTTATGAGGTAACTGGTATGCTTTGCGTCACTGTTTGTTGCTGTATTTACTAAATGGGTGCAAGAAACATGGTTATAAGTAGTTCACCAGCAAAACGGAGAACTTAGTAGACAGTGGTTATAGCCAACGACTGCTATAGTGCCCCTTGTGGCACTGCTGAGAATGCCTCAGTTGTgttgtattttatgtattaaatagCTGGTATTTGCGTTCACATGTTTTGTGTATAGTATGTTTGGGGCCTAAATGTACATGTTTTACATCATTAATTAAATTGCTATAAAAACAGTTTCAAATGACAATTTTAAGAGATATTAGTCGACAATATTAACATAGTCGaaattggttttatttaaactttcCAAACTTTAATAAATTATGATTCTGATTGAAATTTTATaaccaaataaacatatttggaGACTTCTGTAAAAGATTTGCACGTAACACCTCTAGGAAAAATCTAGCATGCttcatttggcaaaaaaaaaaaaacatttcttaaatcagttttatttttctgtcattGTATTTTCGGAGTTTGTCCATATGTCAAGTTTTAGATTAATGTTGACGTAATTGTAAGACACTACTCTTAAGGGCTACTTTCATTTCAGGACTTTGTTTACTAGAGAGATCTATTTTGTGACTTGCGTCTGCCAAGAAAGCTTTAATCATCTTATTTTTGCTGAAAAAATGATGCCCAGTTGGACCACATGTATATGCGCATGCATTTACTTTCACCTTCATTTACCTTGATCCTATTTTTTCGTTCCTTTTTCTTACTGATTATTACATCCTGTAAACTTCTTGGTAATGTGCCAACATTTTCCTGTAGGTAATTTAAGTTTTTACACAACTCTGTTGGTTACAGGATGTACTATTGGAAAAAGATCAGATTGATTTTTATGCATTACTGTACTATTTTGGAAATACGACTGTACGGCTGTATTGATACTGATGCAAAGATGATAGTACAGATTGTTTCTGACCGGCTTTCAAAGCACTTGGATTGTCTTCCATTGTTGAAAGGTATTGCTGGATTTAAAAGAGAATATGTTTGAATTCAGTGGAGATGTAAAGCAcacatatttattatattgtaaaaaaaaatgtcatgtttgtttttaaattttgccTTTTACCAATTCACGTCATCAGAACACTGAGCATTTCTAGCTGACATGACAGGAATTAAATGTAGCATCCATAAAAAAAA

Function

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 ENSDART00000062856

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00018882 lncRNA upstream 414700 4553896 ~ 4554428 (+) True XLOC_008271
TCONS_00018754 lncRNA upstream 437163 4528549 ~ 4531965 (+) True XLOC_008270
TCONS_00018879 lncRNA upstream 648113 4313091 ~ 4321015 (+) False XLOC_008269
TCONS_00018755 lncRNA downstream 271424 5256501 ~ 5256782 (+) True XLOC_008278
TCONS_00018883 lncRNA downstream 292826 5277903 ~ 5278903 (+) True XLOC_008279
TCONS_00018884 lncRNA downstream 483021 5468098 ~ 5470851 (+) False XLOC_008289
TCONS_00018885 lncRNA downstream 483283 5468360 ~ 5471508 (+) True XLOC_008289
TCONS_00018886 lncRNA downstream 856480 5841557 ~ 5853342 (+) True XLOC_008291
TCONS_00016645 mRNA upstream 333309 4632782 ~ 4635819 (+) True XLOC_008272
TCONS_00016644 mRNA upstream 1043139 3825117 ~ 3925989 (+) True XLOC_008267
TCONS_00016643 mRNA upstream 1152371 3808996 ~ 3816757 (+) True XLOC_008266
TCONS_00016641 mRNA upstream 1164708 3766101 ~ 3804420 (+) False XLOC_008265
TCONS_00016640 mRNA upstream 1172310 3766101 ~ 3796818 (+) False XLOC_008265
TCONS_00016647 mRNA downstream 3112 4988189 ~ 4999810 (+) False XLOC_008274
TCONS_00016648 mRNA downstream 3125 4988202 ~ 4999804 (+) True XLOC_008274
TCONS_00016649 mRNA downstream 43531 5028608 ~ 5074983 (+) True XLOC_008275
TCONS_00016650 mRNA downstream 101261 5086338 ~ 5106171 (+) False XLOC_008276
TCONS_00016651 mRNA downstream 103133 5088210 ~ 5106055 (+) True XLOC_008276
TCONS_00016634 other upstream 1462705 3506309 ~ 3506423 (+) True XLOC_008259
TCONS_00016623 other upstream 2283422 2685055 ~ 2685706 (+) True XLOC_008246
TCONS_00016622 other upstream 2294538 2673935 ~ 2674590 (+) True XLOC_008245
TCONS_00016611 other upstream 2610503 2358511 ~ 2358625 (+) True XLOC_008239
TCONS_00016606 other upstream 3095350 1873658 ~ 1873778 (+) True XLOC_008236
TCONS_00016665 other downstream 870034 5855111 ~ 5855225 (+) True XLOC_008292
TCONS_00016677 other downstream 1573973 6559050 ~ 6559185 (+) True XLOC_008299
TCONS_00016680 other downstream 1693444 6678521 ~ 6727082 (+) True XLOC_008301
TCONS_00016681 other downstream 1785509 6770586 ~ 6772120 (+) True XLOC_008302
TCONS_00016699 other downstream 3697745 8682822 ~ 8682937 (+) True XLOC_008317

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000092_01871020_01880095.mRNA True 3780 mRNA 0.44 5 CI01000092 1871020 ~ 1882078 (+)