RNA id: TCONS_00057971


Basic Information

Item Value
RNA id TCONS_00057971
length 1076
lncRNA type sense_over
GC content 0.50
exon number 1
gene id XLOC_028357
representative False

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 56025 ~ 64703 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GAAGAGGAGCGGCGGGCCGCATGTGGAGGTGCACGTCACGCTGACTGAATGAAGGAGCTCTGACTGATGCCGCTCGCTGTTCCCTCAGTGTCCAACTGCTGAAGTGTGCTATGCCTCAGTCAGACCCATAGCCCCGCCCCACACTCTCCTCATTGGCTGTCGGAGCTGCTCATTAACACACAGACCTCCTGCAGAGACTCCGAGTGCTGAAGGTGTTCTGGGAATCACGCGCAGTCGGAGGGGTGTGAGACACGGCAGCGCTCTGGAGGATCAGCTGATCGCTCTGCACTGCTCTCCAGTGTCCAGCCTTCACTCTAGACTAGTGCAGATGTTGATGAGCAGAAACAGTCGGACTGAGCTCCGGCAGAGCTGATGATGCTGCATGTGTCAGCACCGGCCGCTCTTCAGGACATTAAATCACCCTTCACACCGCCTCCCGTCTCTGAGTCTTCATTTCAGCTCAGCTCCTCCATGCTGGACACACACTgatgcgtgtgtgcatgtgtgcgtgtgtgtgtgcgtgtgtgtgtgcgtgtgtgtgtgcgtaagtgTGCGTGCTTTTATCAAATATTAACATTCAAACACTTCTCTCTCCTTCACATCCAGTCATGGGCCTgcagtactgtgtgtgtgtgtgtgtgtgtgtgtgtgcgctcactCTGATCTTCAGGGTCGAGCTGAGTCTGTTTGCTCCTGCATTAGATATGGTCTGGGTTGTTTGGAGAAATATGGGCTGTTTGAGGGTTTCTTCAGTGCTGTTTTGGAAACACAGGAGAGAAACTGAGTCTGAGCCGTCCAGCagatgaaggtgtgtgtgtgtgtgtgtgtgtttgagtcagAAGCAGATGCGTCTCAAGGCTGGACAGAAGTACAACTCTGtcaaaaaaagctgtttttttttttttttttggtatttcaaggtgttgtgtgtgtgtctgtgtgtgtgtgtgtgtgtgtgtgtgatttcagtAACAGCCATTAGGTCTGATCAACTCATTTACTAGAGGAGCTCTTATTGTTCTGGTTTCTCGTGTTTTACAGTATTacagttgtgtttataaatgtcaGTAAAGCTG

Function

GO:

id name namespace
GO:0044085 cellular component biogenesis biological_process
GO:0016070 RNA metabolic process biological_process
GO:0016071 mRNA metabolic process biological_process
GO:0016072 rRNA metabolic process biological_process
GO:0006613 cotranslational protein targeting to membrane biological_process
GO:0022613 ribonucleoprotein complex biogenesis biological_process
GO:0034470 ncRNA processing biological_process
GO:0006364 rRNA processing biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0006396 RNA processing biological_process
GO:0030490 maturation of SSU-rRNA biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:0010467 gene expression biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) biological_process
GO:0042273 ribosomal large subunit biogenesis biological_process
GO:0042274 ribosomal small subunit biogenesis biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0034660 ncRNA metabolic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0030684 preribosome cellular_component
GO:0032040 small-subunit processome cellular_component
GO:0044422 obsolete organelle part cellular_component
GO:0044424 obsolete intracellular part cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0044428 obsolete nuclear part cellular_component
GO:0070013 intracellular organelle lumen cellular_component
GO:0044446 obsolete intracellular organelle part cellular_component
GO:0044464 obsolete cell part cellular_component
GO:0032991 protein-containing complex cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0005623 obsolete cell cellular_component
GO:0005634 nucleus cellular_component
GO:0016592 mediator complex cellular_component
GO:0030867 rough endoplasmic reticulum membrane cellular_component
GO:0031974 membrane-enclosed lumen cellular_component
GO:0031981 nuclear lumen cellular_component
GO:0043226 organelle cellular_component
GO:0043227 membrane-bounded organelle cellular_component
GO:0043228 non-membrane-bounded organelle cellular_component
GO:0043229 intracellular organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0043232 intracellular non-membrane-bounded organelle cellular_component
GO:0043233 organelle lumen cellular_component
GO:0005730 nucleolus cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko00230 Purine metabolism
ko00240 Pyrimidine metabolism
ko03020 RNA polymerase
ko03230 Viral genome structure
ko04623 Cytosolic DNA-sensing pathway
ko05164 Influenza A
ko05169 Epstein-Barr virus infection
ko05016 Huntington disease
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00057303 lncRNA downstream 43685 6163 ~ 12340 (-) True XLOC_028354
TCONS_00057972 lncRNA upstream 14363 71463 ~ 72658 (-) True XLOC_028358
TCONS_00057973 lncRNA upstream 16330 73430 ~ 74608 (-) True XLOC_028359
TCONS_00057974 lncRNA upstream 42891 99991 ~ 101377 (-) True XLOC_028360
TCONS_00057304 lncRNA upstream 59222 116322 ~ 119194 (-) True XLOC_028362
TCONS_00057305 lncRNA upstream 77863 134963 ~ 137757 (-) True XLOC_028364
TCONS_00055090 mRNA downstream 2655 48519 ~ 53370 (-) False XLOC_028356
TCONS_00055091 mRNA downstream 2655 49992 ~ 53370 (-) True XLOC_028356
TCONS_00055089 mRNA downstream 37814 17308 ~ 18211 (-) True XLOC_028355
TCONS_00055093 mRNA upstream 50187 107287 ~ 119689 (-) True XLOC_028361
TCONS_00055094 mRNA upstream 71597 128697 ~ 133492 (-) True XLOC_028363
TCONS_00055095 mRNA upstream 77312 134412 ~ 149334 (-) False XLOC_028364
TCONS_00055096 mRNA upstream 94406 151506 ~ 178510 (-) False XLOC_028365
TCONS_00055097 mRNA upstream 94957 152057 ~ 170120 (-) True XLOC_028365
TCONS_00055111 other upstream 625952 683052 ~ 685419 (-) True XLOC_028374
TCONS_00055123 other upstream 747047 804147 ~ 808453 (-) True XLOC_028380
TCONS_00055131 other upstream 880129 937229 ~ 948842 (-) True XLOC_028386
TCONS_00055166 other upstream 2003424 2060524 ~ 2162724 (-) False XLOC_028412
TCONS_00055185 other upstream 2618006 2675106 ~ 2686090 (-) False XLOC_028423

Expression Profile

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