RNA id: TCONS_00058022


Basic Information

Item Value
RNA id TCONS_00058022
length 1269
lncRNA type intronic
GC content 0.34
exon number 2
gene id XLOC_028471
representative False

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 5421746 ~ 5459469 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

gcaagtcattgtataccagtaatttcttctgcagacaatcaaaaatatacagtgcctaaaggggctaataatattgaccttaaaagaggtttcaaaatatttaaatctgcttttactctagccaaaacaaaacaaataagcctttcatTAGAGCAAatgctgttaaaattccttgctctgttaaacatcatttgggaaatattaattttttttaaattctcaggagcgctaataattttgacttcaactaataatcgtttggaataatcgtgattacaattaagaccaaaataatcgtgattatgatttttaccaaaatcgagcagccctagacAGAGCACACGTGTCCTGTAAGAGCATCAGACATGTCGACTCCTGCAGTCTGATATTGAACACTTGATCAAACACAGAAAACAGCAGCAAGAACACAAGAGCTCAAAGCAAAGACAGCAAGTGTTGCTATTAAGACAGGCCCGATTTTACACGTCACTGACTTATTGATTATTAATGTCTGCTGATTATTAATGTCTGCTGATTATTAATGTCTGCTGATTATTAAGATTTGCTGATTATTAATGTCTGCTGATTGTTAATGTCTGATGATTATTAATGTCTGTCATCTAAACTGAGCTTGTTGATTTGGTCAGACAGAGTCAGCTAAAGTAAGATGTTCTTACCGTCTGGTTCTTCTAGACGTCTCTTCTAGCTCAGGCTGAACGTCTGTGTGAAGATAAAGAGAGTCGAGTAGTGATGATTGATGCTTTTCAATAATTCAgctcatttgttttaaagatcagCTTAAACTATATTGTAGATTCATCAcatcagcgccctctagtggagaaaCACTGACATCTCAGGATTTTGTTGAGCATCTTTCTAAAATCAGGATTGGCCGAAAAATGTGTGCTCTGAACCACTGATTCAATCAAAGAGTCAAATAAAAGATTCAAATTGAAGATTCAAATTGAAGATTCAAATTGAAGATTCAAATTAAAGAttcaaattaaagatttaaatCAAAGATTCAAATCAAAGATTCTAATCAAAGATTGAAATGAAAGATTCGAATTAAAGATTCAAATAAAAGATTCAGAGCTTATTGAATCAGTGATTCAAAAGCAGCATCACTGCATTTTAGAGATTTGTCTCACCTGTGTTTGAGTCGCATCTTCTTTTCACACTCCTTTACTTTCCATCTGTGCTgtgaataaaaacatacaaacattaaGAAATGTCTCCTTTACTGTGCCGAAAATACATAGAAGG

Function

GO:

id name namespace
GO:0044085 cellular component biogenesis biological_process
GO:0000027 ribosomal large subunit assembly biological_process
GO:0022607 cellular component assembly biological_process
GO:0001732 formation of cytoplasmic translation initiation complex 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:0043009 chordate embryonic development biological_process
GO:0019538 protein metabolic process biological_process
GO:0043603 cellular amide metabolic process biological_process
GO:0043604 amide biosynthetic process biological_process
GO:1901564 organonitrogen compound metabolic process biological_process
GO:1901566 organonitrogen compound biosynthetic process biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0043043 peptide biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0006412 translation biological_process
GO:0006413 translational initiation biological_process
GO:0043933 protein-containing complex subunit organization biological_process
GO:0010467 gene expression biological_process
GO:0044237 cellular metabolic process biological_process
GO:0044238 primary metabolic process biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0042255 ribosome assembly biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0044267 cellular protein metabolic process biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0042273 ribosomal large subunit biogenesis biological_process
GO:0070925 organelle assembly biological_process
GO:0006518 peptide 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:0002181 cytoplasmic translation biological_process
GO:0002183 cytoplasmic translational initiation biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0044391 ribosomal subunit cellular_component
GO:0071541 eukaryotic translation initiation factor 3 complex, eIF3m cellular_component
GO:0044424 obsolete intracellular part cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0022625 cytosolic large ribosomal subunit cellular_component
GO:0022626 cytosolic ribosome cellular_component
GO:0022627 cytosolic small ribosomal subunit cellular_component
GO:0044444 obsolete cytoplasmic part cellular_component
GO:0044445 obsolete cytosolic part cellular_component
GO:0005829 cytosol cellular_component
GO:0005840 ribosome cellular_component
GO:0005852 eukaryotic translation initiation factor 3 complex cellular_component
GO:0005854 nascent polypeptide-associated complex cellular_component
GO:0032991 protein-containing complex cellular_component
GO:0015934 large ribosomal subunit cellular_component
GO:0015935 small ribosomal subunit cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0033290 eukaryotic 48S preinitiation complex cellular_component
GO:0016282 eukaryotic 43S preinitiation complex cellular_component
GO:0043228 non-membrane-bounded organelle cellular_component
GO:0043232 intracellular non-membrane-bounded organelle cellular_component
GO:0070993 translation preinitiation complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0008135 translation factor activity, RNA binding molecular_function
GO:0019843 rRNA binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0005198 structural molecule activity molecular_function
GO:0003723 RNA binding molecular_function
GO:0031369 translation initiation factor binding molecular_function
GO:0003729 mRNA binding molecular_function
GO:0003735 structural constituent of ribosome molecular_function
GO:0003743 translation initiation factor activity molecular_function

KEGG:

id description
ko00230 Purine metabolism
ko00240 Pyrimidine metabolism
ko03020 RNA polymerase
ko03230 Viral genome structure
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_00055254 lncRNA downstream 138914 5282002 ~ 5282832 (-) True XLOC_028467
TCONS_00055247 lncRNA downstream 312839 5105620 ~ 5108907 (-) True XLOC_028465
TCONS_00058019 lncRNA downstream 454035 4962957 ~ 4967711 (-) True XLOC_028462
TCONS_00058018 lncRNA downstream 454775 4962957 ~ 4966971 (-) False XLOC_028462
TCONS_00058016 lncRNA downstream 454881 4962957 ~ 4966865 (-) False XLOC_028462
TCONS_00055267 lncRNA upstream 447 5453571 ~ 5455596 (-) False XLOC_028471
TCONS_00055266 lncRNA upstream 447 5453571 ~ 5455596 (-) False XLOC_028471
TCONS_00055268 lncRNA upstream 447 5453571 ~ 5458959 (-) False XLOC_028471
TCONS_00058032 lncRNA upstream 447 5453571 ~ 5458966 (-) False XLOC_028471
TCONS_00058033 lncRNA upstream 447 5453571 ~ 5459469 (-) True XLOC_028471
TCONS_00055258 mRNA downstream 50107 5362909 ~ 5371639 (-) False XLOC_028470
TCONS_00055261 mRNA downstream 50887 5366312 ~ 5370859 (-) False XLOC_028470
TCONS_00055260 mRNA downstream 51193 5366312 ~ 5370553 (-) False XLOC_028470
TCONS_00055262 mRNA downstream 51278 5367830 ~ 5370468 (-) False XLOC_028470
TCONS_00055259 mRNA downstream 55180 5365754 ~ 5366566 (-) False XLOC_028470
TCONS_00055269 mRNA upstream 45106 5498230 ~ 5538752 (-) True XLOC_028473
TCONS_00055270 mRNA upstream 115564 5568688 ~ 5595237 (-) False XLOC_028475
TCONS_00055271 mRNA upstream 134059 5587183 ~ 5597167 (-) False XLOC_028475
TCONS_00055272 mRNA upstream 134491 5587615 ~ 5597802 (-) True XLOC_028475
TCONS_00055273 mRNA upstream 192127 5645251 ~ 5652030 (-) True XLOC_028476
TCONS_00055263 other downstream 50124 5370056 ~ 5371622 (-) True XLOC_028470
TCONS_00055239 other downstream 489222 4930411 ~ 4932524 (-) True XLOC_028460
TCONS_00055225 other downstream 850941 4546209 ~ 4570805 (-) True XLOC_028452
TCONS_00055220 other downstream 924955 4492566 ~ 4496791 (-) True XLOC_028449
TCONS_00055185 other downstream 2735656 2675106 ~ 2686090 (-) False XLOC_028423
TCONS_00055293 other upstream 983640 6436764 ~ 6451732 (-) False XLOC_028490
TCONS_00055295 other upstream 1112529 6565653 ~ 6567266 (-) True XLOC_028490
TCONS_00055299 other upstream 1732071 7185195 ~ 7185311 (-) True XLOC_028494
TCONS_00055301 other upstream 1768956 7222080 ~ 7222367 (-) True XLOC_028496
TCONS_00055306 other upstream 2226855 7679979 ~ 7680095 (-) True XLOC_028504

Expression Profile

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