RNA id: TCONS_00028471


Basic Information

Item Value
RNA id TCONS_00028471
length 854
RNA type mRNA
GC content 0.49
exon number 4
gene id XLOC_014346
representative True

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 47783092 ~ 47787275 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATTGTATTCACTCTCGCTAAACTTAACAATGATTGATCAGTGTAATAAAGAGATCGCAGAGTGTGATTAATGTAATCGCTGTGTTTCGGTCAGTAATGCCCGGATCAGCGTTGTTATCGCTGCAGCAGGAGCTCCGGCGGGGATTCGAGGCTCTAAAGGCCGCCAAAGATGCGTTTGATGGCGGTCATGCGGAGTGTCAGGAGCTCGTCTCCTCTCTGGGGAACCTGGCGCTCCAGCTGAAGGCTCTCAAACAGGTCCAGATATCCAAAACTCCTCTCTCCGGATTCCCATGTTTACAGCAGCGACTCCATTACAAGCTCTCGCTGGCGGTGGACGCACTTCTGGCTAAACTAGCCGAGAAAATGGCTGCTCTTCAGAAGGTGCGGGATGCCTTCGCTCAGCAGGTGTTTACTGTCGTGCAGCTCTATGAGAAAAACACAGACGCTCTGGACATCAGCGTGTGCGTCTCCAGATCAGCCGTCTGTCCTTCTGTCTCAGACATGCTGGAGTGGCTTCAGGACGCCGACCGATATTACCGCCTGCAATTAATGCAAAGCCGGCTCCTCCTTCAGACGCTGACCCCCACTGACCTTACATCAATGGAAACAGCACCAAATAGATGGAGATCTCTGCGTTCTGCCCGTCAGGAGGAGAGAATTGCAGATGCATTGTGTCAAGTGTCGATCTTCTTGGagactgaatgaatgaaggatcCTTAAAAAGAGACAGACTGAACTCTGTCTCCTGGATTAATGTAGTTTTATGGTGCGATTTAGCATTATAAGGACTGTGCATCAGCATCATTGTAAGAGCAATGCTctactgtaataaatgcaattcatgctttttatatt

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:0000027 ribosomal large subunit assembly 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:0065003 protein-containing 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:0090304 nucleic acid metabolic process biological_process
GO:0006396 RNA processing biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0043933 protein-containing complex subunit organization 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:0000460 maturation of 5.8S rRNA biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0042255 ribosome assembly biological_process
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) biological_process
GO:0000469 cleavage involved in rRNA processing biological_process
GO:0000470 maturation of LSU-rRNA biological_process
GO:0042273 ribosomal large 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:0071704 organic substance metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0034622 cellular protein-containing complex assembly 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:0032991 protein-containing complex 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: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

ZFIN:

id description
ZDB-GENE-021219-1 Predicted to be active in cytoplasm and nucleus. Orthologous to human C1orf109 (chromosome 1 open reading frame 109).

Ensembl:

ensembl_id ENSDART00000024777

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00029737 lncRNA upstream 191901 47590029 ~ 47591236 (+) True XLOC_014345
TCONS_00030052 lncRNA upstream 334543 47438204 ~ 47448594 (+) True XLOC_014341
TCONS_00028467 lncRNA upstream 359510 47421060 ~ 47423627 (+) True XLOC_014340
TCONS_00030051 lncRNA upstream 444980 47337582 ~ 47338157 (+) True XLOC_014339
TCONS_00030050 lncRNA upstream 591636 47188530 ~ 47191501 (+) True XLOC_014334
TCONS_00030053 lncRNA downstream 10614 47797889 ~ 47800811 (+) True XLOC_014347
TCONS_00028472 lncRNA downstream 51328 47838603 ~ 47843652 (+) True XLOC_014348
TCONS_00029739 lncRNA downstream 119875 47907150 ~ 47916939 (+) False XLOC_014349
TCONS_00028473 lncRNA downstream 121873 47909148 ~ 47917554 (+) True XLOC_014349
TCONS_00029741 lncRNA downstream 137395 47924670 ~ 47927811 (+) False XLOC_014350
TCONS_00028469 mRNA upstream 259835 47502581 ~ 47523302 (+) True XLOC_014343
TCONS_00028468 mRNA upstream 301519 47476908 ~ 47481618 (+) True XLOC_014342
TCONS_00028465 mRNA upstream 359509 47394270 ~ 47423628 (+) False XLOC_014340
TCONS_00028466 mRNA upstream 359509 47405867 ~ 47423628 (+) False XLOC_014340
TCONS_00028464 mRNA upstream 446729 47311869 ~ 47336408 (+) True XLOC_014338
TCONS_00028475 mRNA downstream 231189 48018464 ~ 48023442 (+) False XLOC_014352
TCONS_00028476 mRNA downstream 231194 48018469 ~ 48023271 (+) False XLOC_014352
TCONS_00028478 mRNA downstream 231527 48018802 ~ 48023324 (+) False XLOC_014352
TCONS_00028481 mRNA downstream 231567 48018842 ~ 48023434 (+) False XLOC_014352
TCONS_00028482 mRNA downstream 231795 48019070 ~ 48023348 (+) True XLOC_014352
TCONS_00028470 other upstream 208314 47574615 ~ 47574823 (+) True XLOC_014344
TCONS_00028459 other upstream 473754 47299166 ~ 47309383 (+) False XLOC_014336
TCONS_00028462 other upstream 476399 47306623 ~ 47306738 (+) True XLOC_014337
TCONS_00028450 other upstream 1502206 46243620 ~ 46280931 (+) False XLOC_014327
TCONS_00028436 other upstream 2274156 45508865 ~ 45508981 (+) True XLOC_014316
TCONS_00028474 other downstream 230731 48018006 ~ 48018346 (+) True XLOC_014351
TCONS_00028479 other downstream 231531 48018806 ~ 48023408 (+) False XLOC_014352
TCONS_00028484 other downstream 246024 48033299 ~ 48033440 (+) True XLOC_014354

Expression Profile

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