RNA id: TCONS_00058049


Basic Information

Item Value
RNA id TCONS_00058049
length 3866
lncRNA type inter_gene
GC content 0.36
exon number 1
gene id XLOC_028501
representative False

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 7598210 ~ 7653189 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

cacgtgtgtatcttcactgctgcagaggagagagagagagagagcaatgactgaacacaaacactacaACAACATCACTACAAACTAAACCAACGAAGCAAAGTCCCTTACAGGTGAGTCGCGTTACTCTCCATTTCTGCACTTGGTGTGGCTTTTCTTCACTGTCGGGCTGTAATatctgctgttgactgacattaTGAGTCTGTCACTGAGCTGTCATCTGCTGGAGCTCAACTTGACGCCAGTAAAACGGTGTACCTGTGCTGATCTGGTGTCACCTTTGCTGTCAAAGGTGTTCAGGCTAAAGAGCAGCTCGCTGATGCCGCCTAGTGGAGCGGATTGAGAACTGCGTATAGATTACCTGGAGTCACATCACATCAGTGTACACATGCTGTAACATCATGTAGCAACAACAAAATAATCGATACTTTATGTAATATATGTAAGTTAAATCTGCAGTTTGTAACTGTTTTTACAAAACTTATAAATAAATTGCGAAAGTTGCAGTGTTAGTGTTTGGtgagactgtttttatttgtttattatttcattttttattttaacaaatacaatatCAGTACTTAACAAGTTCAAAATATCAAATTCAGCAGTCAGTAGTATGGTTCAGTCGTTACACATTACTGTGGCTAAATAGACTGCATATTGACATTTTAGACAGAAAggaggaaaagaaaaacaaaaggggCATTACAgcaaaatatacaatattttattagaGACGTAGCTCTGtttacagttaaaaaaattaatacattattaaaaatcaataaatttgcAAAGTTGGGGTTTAGGTTACTCCATTTGGATTGATGAATATAATAGTAAGAATAGTGTGATTTAGCTTCTGCACTTCAGTACATTTCTCCACCTCTAATTTATTAGAGTACTTTTATTCAGGTAAAAGTTAGTTCATATTTCAaagaattacatttaaatgttaactcctatacatttatgcatttgaagGTGCGGTAAAGTTAAATGTTGTAAAGTTATTTTGAGAGGAGTctgaatgcagacctggtgcagtgcaatctgagccgcatccaatgctttttaatgcgctcacctaaccccacccctcacagtgacgtcactagctgcattaagtgcattgtgtctgacattgcatctctgaaatATGCAGCCTCAGCTTGTATCATCAAGGCAGAATCTAGATACTGttgattatttttaaaactaGAGAAATCTTCAGCTGATAGACATGATAGACGTCTTCACATGATAGCGGAGCTCAGTTCATTATCAAACTACTTCTTCTCAGTTAAAGTGTTGCGCAAATCACACTCAACATAAATCCTTTGAACTGAACTAATCTGACTGCAGCTCTTCTGGAGTGATCTGTATGCTGGTCGAGAGAGCTCAAACAATTTCTGCAAGTTAAGAAAACATGTGCAAATTGAGAAAACATCTTCATCTATTTGACAAAACACATATTCTCACAAGACATGCAATATAGACTCACACATAAAGCACAGACAGGAATGTGTCAGGGGGCCCCAGAATGTAATGCACCAGCTCTTTCCTGTTTAAAATCAGTGGCAGCATATGATCAAGATAGTAAAATTAATATGAGCtcaaaatgcatgtatttaccaTCAATCTGCTTTGAAATGTTGTTAACAGTTTAGCTGTTTGTAGAGTATAAATGATAAAATGTTTGGGAAAAAAGTGCTCATTGCATGCATTTTGTGTGAAAGCAATGAAAAATGATTGACCGTTTGCTCCCTGTAGACTTCTGTTAAGCTGTTTGAGTCAACAGTATGGAAAACGTGGCTTCAGATCTCCACAATGCCTGTTAGAAGTTGAAAAGAGCTTAACATTTATAATATGTTTAATTCTGATGTATAACACTGTTCAGCACAAATAAAAAGCCGTTAATAACTGGGAATAACTCAGTgttattaataatgtataaaataaaaatacagataaatGTGGTGCTTTGTGGTGGTTAAAACTGTTAGAATAAAATAATCATCTCTAATATTCAAAAACCTTGACGTGCAAGCAGGATCAGTGTTGAAGTCTTCATTAAATAAATGACGCTTTAAAGTTACACTAAAAGAAGAGAGGATCTCGTATATTGATTTGTTTCAAATTCCTTTATCTTCACATTTTTCTTGCATCCTGAGGTGAAAAGGAAGGAAAGTAAATGAGGAAAGTAACGGAGGAAGCAGAAATAAGAATTAAGAAGCACCAAGAGTCTCCAGTTAAGAGAAAATCACTGATTTCACAAGTCTGACTGAGAGTGAAGAGAACAGGACGCCCTCGGAGTCAAGATTATTATCATTTAGCATTTGTAATTTAggttttatttcaatactttctTTAAATTTGCTGTCAGTTTCAGTTCATTTCATTAATGgctttattagttttagtttagtttttatcttGTGAACACGTCTCTGTTTAGTTTTTATGTTTACTTTCAGCTTTACTTTTAGTAATTCTAGTTCCAGAGCAAAGTTGAGTGTTTACACAGATTATATTTTACTCTTagtaacacaaataaaacaattatttaacaaACACCGAATCCAAAATTATTCAGACAAATTCTGCAGAATTTATACTTCAACATCTGTATATTAAATATCACACTGTATATGTAGATAAACATGCCTAGTTTAAAAAAGGCATGTTTATAATCTTTATCTTGACCGCTGTGTTTGGCTGTAAAAGCACATCTACAGCTGTTTCTCTAAACAGGTCTGATGTTTTCTTTTTGccgatgattattttattttagttaatgtaCATGTATTTTGGCCGatagttttagtcttagttttcatttactaaaataacctcTGAGCTTGAGTGTGTCTGGCTGTTTCTAATCATAGTAACACTAAAATCATGTTCACTACTGTCAGTTGTTTGTGAAATAAATTTGAGGTTAAAGGTGAAGCATGTTGTAAGCCCAGTGTATGAATTACGGTCTGTACTTGTGAGTTTGAACTGAACTTATAcagttcatttatttcatttcagtctGTCAAAACTATAGAACTTCTCTTGATCATGGTCCTGGATGCTCCAGGGGAAATGCTTATTTACCAAAAACTCCACAAGAGGGCGAAATGTTTCAGTTCATTACTTTAGATTTGCAAttgtgtaattcaccaaaatctCCACAGGAGGGTAAAACTTTGAATTTCATTATTTTAGAAAGGCAGCAGTGCAGTTCACAAATATCACCACAAGAGGGCGAATATTTTAATATCATCAAGTTCGCAGTggtgtaattcagaaatatctccacaggagggAGAAACCTTCATTATTTTAGAGCGACAGCAGTGCAGTCCACAAAAATCCCCACAAGAGGGCGAATATTTTCAATTCAGTAGATTCAAGATTTGCAAAAGTGTAGTTCAGAGAAatctccacaggagggcgcaatatttgatacatatgtaatatttgtctatttgtctattgttagatcagatattcagcgtgtgtaataatgtgttgatttgtgtgtcgactctacaggatcagtgaagtgttgtggactgtaagtctgttgaacagaagcagagacgagtggacagacactgactgtactgatgatgATCATCTGCTGCTGCACAGGTGATGTAGATCATGTGTGTGATTGGTTGTGTGTATGTGGCTATTCCAcatgtcggttaccatcatttgctttgtggagggtcactcctctacaaagtaaatgatggtaaccgaaatGGGTGGGGAAGGGACGCAGGTCCagaatttttatacagttcattttaaatttttttgccaggctgtaaagtataacccctgctggacacggctccggaagc

Function

GO:

id name namespace
GO:0016072 rRNA metabolic process biological_process
GO:0022613 ribonucleoprotein complex biogenesis biological_process
GO:0006364 rRNA processing biological_process
GO:0043603 cellular amide metabolic process biological_process
GO:0043604 amide biosynthetic 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:0010467 gene expression biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0042255 ribosome assembly biological_process
GO:0000470 maturation of LSU-rRNA biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0042273 ribosomal large subunit biogenesis biological_process
GO:0061028 establishment of endothelial barrier biological_process
GO:0006518 peptide metabolic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0044391 ribosomal subunit 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:0044446 obsolete intracellular organelle part cellular_component
GO:0005829 cytosol cellular_component
GO:0005840 ribosome 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:0043228 non-membrane-bounded organelle cellular_component
GO:0043232 intracellular non-membrane-bounded organelle cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005198 structural molecule activity molecular_function
GO:0003723 RNA binding molecular_function
GO:0003735 structural constituent of ribosome 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_00057324 lncRNA downstream 16967 7578861 ~ 7581433 (-) True XLOC_028500
TCONS_00057323 lncRNA downstream 31893 7557414 ~ 7566507 (-) True XLOC_028499
TCONS_00058048 lncRNA downstream 52283 7538015 ~ 7546117 (-) True XLOC_028498
TCONS_00058047 lncRNA downstream 52297 7538015 ~ 7546103 (-) False XLOC_028498
TCONS_00057321 lncRNA downstream 574875 7020729 ~ 7023525 (-) True XLOC_028493
TCONS_00058051 lncRNA upstream 5391 7607656 ~ 7653121 (-) False XLOC_028501
TCONS_00058052 lncRNA upstream 9603 7611868 ~ 7653008 (-) False XLOC_028501
TCONS_00058053 lncRNA upstream 13412 7615677 ~ 7618015 (-) False XLOC_028501
TCONS_00058054 lncRNA upstream 13412 7615677 ~ 7652986 (-) False XLOC_028501
TCONS_00058055 lncRNA upstream 17680 7619945 ~ 7653004 (-) False XLOC_028501
TCONS_00055302 mRNA downstream 366920 7229236 ~ 7231480 (-) True XLOC_028497
TCONS_00055300 mRNA downstream 385525 7210755 ~ 7212875 (-) True XLOC_028495
TCONS_00055296 mRNA downstream 789077 6799794 ~ 6809323 (-) False XLOC_028492
TCONS_00055297 mRNA downstream 791768 6805038 ~ 6806632 (-) False XLOC_028492
TCONS_00055294 mRNA downstream 1138537 6451156 ~ 6459863 (-) False XLOC_028490
TCONS_00055304 mRNA upstream 51342 7653607 ~ 7673165 (-) False XLOC_028503
TCONS_00055307 mRNA upstream 116589 7718854 ~ 7811925 (-) True XLOC_028505
TCONS_00055308 mRNA upstream 248864 7851129 ~ 7869731 (-) True XLOC_028506
TCONS_00055309 mRNA upstream 268119 7870384 ~ 7876005 (-) False XLOC_028507
TCONS_00055312 mRNA upstream 268563 7870828 ~ 7875808 (-) False XLOC_028507
TCONS_00055301 other downstream 376033 7222080 ~ 7222367 (-) True XLOC_028496
TCONS_00055299 other downstream 413089 7185195 ~ 7185311 (-) True XLOC_028494
TCONS_00055295 other downstream 1031134 6565653 ~ 6567266 (-) True XLOC_028490
TCONS_00055293 other downstream 1146668 6436764 ~ 6451732 (-) False XLOC_028490
TCONS_00055263 other downstream 2226778 5370056 ~ 5371622 (-) True XLOC_028470
TCONS_00055306 other upstream 77714 7679979 ~ 7680095 (-) True XLOC_028504
TCONS_00055310 other upstream 268400 7870665 ~ 7875944 (-) False XLOC_028507
TCONS_00055311 other upstream 268471 7870736 ~ 7875760 (-) False XLOC_028507
TCONS_00055313 other upstream 268630 7870895 ~ 7875930 (-) False XLOC_028507
TCONS_00055327 other upstream 539084 8141349 ~ 8141466 (-) True XLOC_028515

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000275_00002139_00003396.mRNA True 2537 mRNA 0.38 2 CI01000275 780 ~ 3470 (+)
rainbow trout (Oncorhynchus mykiss) TU2708060 True 817 lncRNA 0.41 1 NW_023493723.1 139696 ~ 140512 (-)