RNA id: TCONS_00058138


Basic Information

Item Value
RNA id TCONS_00058138
length 1764
lncRNA type inter_gene
GC content 0.36
exon number 3
gene id XLOC_028632
representative False

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 14106675 ~ 14162327 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCGCCTCTAGCGGAGCGGAAGGAGAACTGCACACTTTCTACAGGACAGACTGAAAATGACTTCCAGTTATCGACGGGTCCCTCTTGTGGTCATCAAGTGTATCAATCAGTCTTCAATCAGAAGTGGCTGTCTGCTTTGCTCTGCTGCAGgcaaAAGCAAAACCCCTTCTGGACCCAGTTCTGGATCTCAGGGAGAGACACCACCATCCCGTTCTCAAACACACCACAGCATTCACTCAGTGTGGAGATGTGCAGCCTGTGCTATGAAGCCAGATTAGTGGCTGGCCAGTTCAGTTTCAGTTTAGGTTGCACCAATTCTGGGTTTTAGGTACCATGAAGGAGCTCAGCTCAGCTCGGCTGCTCCATGATGCAAACAAAGAGTGAATAAAGTCCAGCTGCCTTCATGTTACCTAAAactaggcctgcacaatatattgattcagcatcgatatcacaatgtgcaaatctgcaatagtcacatcgcaggatctgctgTGTTGAGTTGGGATTGTGATTAACCAGAAGACAGAGTTCAGTTCTGAACAGTTTAACCCTCACTGAGTGAAAGACTTATCAGGTCTGTATTAGACGATGTAAgatttcaagtgaatttaaatCATTTGGGCACTAGAAATGATCAAAtgtgtagctttaacaaagaataattgcatttaattatttccaCAGTGAAGACTAAAGTAGTCAATGTTTGAAGTGTATCACAAAAGTGTTTCAAAATGTTCCTAGGACAGGACGGGATGTTGTTAAATAGTGTGAGGATAACTTTAATGAAAGGTTTTCAATCTTATAAAGTGATATTCTACATTTGATCTTTTAATTTCTGTCCCTCAGTcctgttagactctccagaaagcCATAAAGCACAGTTTATATAACATGTATATTTCTTCTATTTGATTAATTTATGCTTGttgtatgtttattatattttatgcaaattcaCTCCTCGACAAAATCAAACAATCAAACTTATTCCAAATTCAAGTTGTTAGTCGTATTGTGAAATAATATTCCTATTGCAGTTTATATcgcagaaaaacgaaatattgcgatgtcagtttttcccaatatcctgcagccctacCTAAAACCCAGAACTtgtgcaaactaaactgaaagtTAACCGTCCAACCAGCTAATCCAGCTTCACACTACAGGCCCCTGACTGGACTGctgatgtgtttattttaatgactCTTAGGACAGAGGTTTagttcagctttaatttgagtgATTAAACTGATGTGGCAAGAAAACATAGATCAATGTATTAAAACAAGTGGCCTGAGTTATACAGCATCATGAAAATGGCCAGTAAAATATATGATCAAACTTACAAATATCAATAATTCAACAGTTgaaataaattgttgttgtttttaatattatctgtgtcataaaaaatgcagcGCATCAGTCTGGAGCTTCTAGTGATGCTAAAGGTCTTGAttagctgctgctgctgtttttaaTCAGGACTGAAGTATAAGAAGAATTTCTGATACATTATAAGacattcagagagatgaaaagTCAAAGAGCaagatatttatatactttattacAAGATTCTGGATTGATATTTAGAGAACCTGATGCTGATTCATCATTTATTtgagttgtttttattattgtatttattaatatgtatatttttgtattgtttttgtaaattattgTTAATGTGGAAGGACAGATTGTCATTGTAAATTGATTAATTCAGTCTTTTGAGTAATTTAAAAGT

Function

GO:

id name namespace
GO:0044085 cellular component biogenesis biological_process
GO:0016070 RNA metabolic process biological_process
GO:0016072 rRNA metabolic process biological_process
GO:0071826 ribonucleoprotein complex subunit organization biological_process
GO:0022613 ribonucleoprotein complex biogenesis biological_process
GO:0022618 ribonucleoprotein complex assembly biological_process
GO:0071840 cellular component organization or biogenesis biological_process
GO:0034470 ncRNA processing biological_process
GO:0006364 rRNA processing biological_process
GO:0048513 animal organ development 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:0021906 hindbrain-spinal cord boundary formation 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:0044237 cellular metabolic process biological_process
GO:0044238 primary metabolic process 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:0000469 cleavage involved in rRNA processing biological_process
GO:0042273 ribosomal large subunit biogenesis biological_process
GO:0042274 ribosomal small subunit biogenesis biological_process
GO:0000478 endonucleolytic cleavage involved in rRNA processing biological_process
GO:0000479 endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) biological_process
GO:0061053 somite development biological_process
GO:0006807 nitrogen compound metabolic process 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:0090501 RNA phosphodiester bond hydrolysis biological_process
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic biological_process
GO:0030684 preribosome cellular_component
GO:0030686 90S preribosome cellular_component
GO:0030687 preribosome, large subunit precursor cellular_component
GO:0032040 small-subunit processome cellular_component
GO:0030688 preribosome, small subunit precursor 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:0044452 obsolete nucleolar part cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0005634 nucleus 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:0005488 binding molecular_function
GO:0034511 U3 snoRNA binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0030515 snoRNA binding molecular_function
GO:0097159 organic cyclic compound binding molecular_function
GO:1901363 heterocyclic compound 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_00058136 lncRNA downstream 696 14107334 ~ 14157282 (-) False XLOC_028632
TCONS_00057339 lncRNA downstream 787 14151657 ~ 14157191 (-) False XLOC_028632
TCONS_00057338 lncRNA downstream 5690 14151657 ~ 14152288 (-) False XLOC_028632
TCONS_00058135 lncRNA downstream 5737 14107334 ~ 14152241 (-) False XLOC_028632
TCONS_00058134 lncRNA downstream 33897 14107334 ~ 14124081 (-) False XLOC_028632
TCONS_00058139 lncRNA upstream 5795 14168122 ~ 14170406 (-) True XLOC_028633
TCONS_00058140 lncRNA upstream 11912 14174239 ~ 14186723 (-) False XLOC_028635
TCONS_00055535 lncRNA upstream 11912 14174239 ~ 14186729 (-) True XLOC_028635
TCONS_00058141 lncRNA upstream 184540 14346867 ~ 14360848 (-) True XLOC_028641
TCONS_00058142 lncRNA upstream 268636 14430963 ~ 14444890 (-) False XLOC_028642
TCONS_00055525 mRNA downstream 162212 13963499 ~ 13995766 (-) False XLOC_028630
TCONS_00055526 mRNA downstream 184765 13963505 ~ 13973213 (-) False XLOC_028630
TCONS_00055527 mRNA downstream 184765 13966451 ~ 13973213 (-) True XLOC_028630
TCONS_00055524 mRNA downstream 226470 13925287 ~ 13931508 (-) True XLOC_028629
TCONS_00055523 mRNA downstream 226685 13923927 ~ 13931293 (-) False XLOC_028629
TCONS_00055534 mRNA upstream 8132 14170459 ~ 14173138 (-) True XLOC_028634
TCONS_00055537 mRNA upstream 18670 14180997 ~ 14185225 (-) True XLOC_028637
TCONS_00055538 mRNA upstream 26000 14188327 ~ 14191717 (-) False XLOC_028638
TCONS_00055539 mRNA upstream 26000 14188327 ~ 14192254 (-) False XLOC_028638
TCONS_00055540 mRNA upstream 26173 14188500 ~ 14191434 (-) False XLOC_028638
TCONS_00055510 other downstream 590703 13563667 ~ 13567275 (-) True XLOC_028621
TCONS_00055502 other downstream 902165 13208111 ~ 13255813 (-) True XLOC_028612
TCONS_00055495 other downstream 1179079 12975216 ~ 12978899 (-) True XLOC_028608
TCONS_00055491 other downstream 1243808 12906981 ~ 12914170 (-) True XLOC_028606
TCONS_00055473 other downstream 1376843 12777709 ~ 12781135 (-) True XLOC_028602
TCONS_00055533 other upstream 4715 14167042 ~ 14169631 (-) False XLOC_028633
TCONS_00055536 other upstream 14194 14176521 ~ 14179480 (-) True XLOC_028636
TCONS_00055542 other upstream 26200 14188527 ~ 14189659 (-) False XLOC_028638
TCONS_00055543 other upstream 28725 14191052 ~ 14191984 (-) True XLOC_028638
TCONS_00055545 other upstream 35697 14198024 ~ 14205228 (-) True XLOC_028639

Expression Profile

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