RNA id: TCONS_00057363


Basic Information

Item Value
RNA id TCONS_00057363
length 953
lncRNA type inter_gene
GC content 0.34
exon number 4
gene id XLOC_028856
representative False

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 30540999 ~ 30546286 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

atatatttgtatatatacatatttgtatatattgtatatatacatacaaaaaaatacaacttaCCAACTTGACCTTTCTCAACACCAGCTTTTCCAGTGAGCATGTCTGATGGAAATGAGCAAGAGGATGCTTGGGGGACCACACATTGAGCTATTGAGGTACAACAACCTTCATTAGAGCAAACACAGCAAATTAGTGTGTAATTAATAACATGGTAATGTTACATTTTCAGTACAATCCCTTAGAAGTCACAACCTCTGAACTGAAAACCTTAAGTACCCACCAGGCTAGAGCAAAGAGGACCTACCTACTGTGTTGAGCTGTGCAGAGGGCAATATTGGAGAAGCTTAATGAGCTGGACATGAAGATTAACCATCTAACTTCAGTGGTCCAGTCTCTTGCTTCGGTCAAGTGTTCAAATGGTGGTGGACATTGAGGATTACATCTTTCCTATTGAAACAATGGAAGACCTTGAACAACTGGAAAAGGCAATTAGCCGAAAATCCAATGATGGAAAAGATGatgaaCAGGTTATCCACTAGAGAAGGACAAACTCTAAAAATTTAGAGTTATGGCGTATTTGCTCCAAAGTGTTTGTTCCAGTAGCCAAACAGCTCAACTGGTGTGGAAGAAAAAAAGAGgactaaaaaacacaaatattgggACACTTGTGATAGGTGCAGCTGAGGAACCCTGTGTTTCCGTCTTCAACAGTGGCAgaaacagaaaacattttaaagacttCCTGCGCTTGGCCCCAAAAAGAATGGACTCTTAAACGACTTGCTCTCTTTAAAtgagttttgtttgtttctgaaaaatataaattataataaattataatataatataacataaaataatataatacaaaaaatagtataatataaaataatataatataatatagtataaaataataaaataaatatataatataaaataatataat

Function

GO:

id name namespace
GO:0007178 transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:0001704 formation of primary germ layer biological_process
GO:0001706 endoderm formation biological_process
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0019220 regulation of phosphate metabolic process biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0016070 RNA metabolic process biological_process
GO:0007492 endoderm development biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0065007 biological regulation biological_process
GO:0007507 heart development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0051174 regulation of phosphorus metabolic process biological_process
GO:0002030 inhibitory G protein-coupled receptor phosphorylation biological_process
GO:0060389 pathway-restricted SMAD protein phosphorylation biological_process
GO:0060393 regulation of pathway-restricted SMAD protein phosphorylation biological_process
GO:0060395 SMAD protein signal transduction biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0002043 blood vessel endothelial cell proliferation involved in sprouting angiogenesis biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0031323 regulation of cellular metabolic process biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0030509 BMP signaling pathway biological_process
GO:0090092 regulation of transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:1903225 negative regulation of endodermal cell differentiation biological_process
GO:0060976 coronary vasculature development biological_process
GO:0090100 positive regulation of transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:0043951 negative regulation of cAMP-mediated signaling biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:0010467 gene expression biological_process
GO:0044237 cellular metabolic process biological_process
GO:0006468 protein phosphorylation biological_process
GO:0010468 regulation of gene expression biological_process
GO:0044238 primary metabolic process biological_process
GO:1904323 regulation of inhibitory G protein-coupled receptor phosphorylation biological_process
GO:1904325 positive regulation of inhibitory G protein-coupled receptor phosphorylation biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0051279 regulation of release of sequestered calcium ion into cytosol biological_process
GO:0051281 positive regulation of release of sequestered calcium ion into cytosol biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0031399 regulation of protein modification process biological_process
GO:0031401 positive regulation of protein modification process biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0021703 locus ceruleus development biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0010522 regulation of calcium ion transport into cytosol biological_process
GO:0010524 positive regulation of calcium ion transport into cytosol biological_process
GO:0050789 regulation of biological process biological_process
GO:0050794 regulation of cellular process biological_process
GO:0006807 nitrogen compound metabolic process biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0045937 positive regulation of phosphate metabolic process biological_process
GO:0042325 regulation of phosphorylation biological_process
GO:0042327 positive regulation of phosphorylation biological_process
GO:1903587 regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:1903589 positive regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis biological_process
GO:0019438 aromatic compound biosynthetic process biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0001932 regulation of protein phosphorylation biological_process
GO:0001934 positive regulation of protein phosphorylation biological_process
GO:0010562 positive regulation of phosphorus metabolic process biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0035987 endodermal cell differentiation biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0042664 negative regulation of endodermal cell fate specification biological_process
GO:0071772 response to BMP biological_process
GO:0071773 cellular response to BMP stimulus biological_process
GO:1904427 positive regulation of calcium ion transmembrane transport biological_process
GO:0007167 enzyme linked receptor protein signaling pathway biological_process
GO:0035479 angioblast cell migration from lateral mesoderm to midline biological_process
GO:0010862 positive regulation of pathway-restricted SMAD protein phosphorylation biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0060182 apelin receptor activity molecular_function
GO:0003690 double-stranded DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000976 transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0140110 transcription regulator activity molecular_function
GO:0043169 cation binding molecular_function
GO:0001067 regulatory region nucleic acid binding molecular_function
GO:1990837 sequence-specific double-stranded DNA binding molecular_function

KEGG:

id description
ko03230 Viral genome structure
ko05164 Influenza A
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00058240 lncRNA downstream 133172 30405854 ~ 30407827 (-) True XLOC_028852
TCONS_00055878 lncRNA downstream 176497 30363762 ~ 30364502 (-) True XLOC_028851
TCONS_00058239 lncRNA downstream 221488 30315803 ~ 30319511 (-) True XLOC_028848
TCONS_00055867 lncRNA downstream 399882 30106649 ~ 30141117 (-) False XLOC_028844
TCONS_00058238 lncRNA downstream 400283 30107746 ~ 30140716 (-) True XLOC_028844
TCONS_00057365 lncRNA upstream 32060 30577476 ~ 30581395 (-) False XLOC_028857
TCONS_00057366 lncRNA upstream 33681 30579097 ~ 30581395 (-) True XLOC_028857
TCONS_00058241 lncRNA upstream 514941 31060357 ~ 31062275 (-) False XLOC_028859
TCONS_00058242 lncRNA upstream 514941 31060357 ~ 31062771 (-) False XLOC_028859
TCONS_00058243 lncRNA upstream 514941 31060357 ~ 31063096 (-) True XLOC_028859
TCONS_00055881 mRNA downstream 12760 30521650 ~ 30528239 (-) True XLOC_028855
TCONS_00055880 mRNA downstream 100883 30428468 ~ 30440116 (-) True XLOC_028854
TCONS_00055879 mRNA downstream 118674 30409750 ~ 30422325 (-) True XLOC_028853
TCONS_00055877 mRNA downstream 178159 30354053 ~ 30362840 (-) True XLOC_028850
TCONS_00055876 mRNA downstream 191629 30348676 ~ 30349370 (-) True XLOC_028849
TCONS_00055882 mRNA upstream 161866 30707282 ~ 30712588 (-) False XLOC_028858
TCONS_00055883 mRNA upstream 161882 30707298 ~ 30712160 (-) True XLOC_028858
TCONS_00055885 mRNA upstream 338596 30884012 ~ 31064584 (-) False XLOC_028859
TCONS_00055884 mRNA upstream 338596 30884012 ~ 31064584 (-) False XLOC_028859
TCONS_00055886 mRNA upstream 341334 30886750 ~ 31064584 (-) False XLOC_028859
TCONS_00055851 other downstream 1685322 28829894 ~ 28855677 (-) False XLOC_028829
TCONS_00055850 other downstream 1998864 28542021 ~ 28542135 (-) True XLOC_028825
TCONS_00055849 other downstream 2108554 28432331 ~ 28432445 (-) True XLOC_028824
TCONS_00055832 other downstream 3399696 27141179 ~ 27141303 (-) True XLOC_028817
TCONS_00055829 other downstream 3441714 27088371 ~ 27099285 (-) True XLOC_028815
TCONS_00055888 other upstream 409925 30955341 ~ 30955504 (-) True XLOC_028861
TCONS_00055889 other upstream 429500 30974916 ~ 30975079 (-) True XLOC_028862
TCONS_00055890 other upstream 439940 30985356 ~ 30985519 (-) True XLOC_028863
TCONS_00055891 other upstream 446465 30991881 ~ 30992044 (-) True XLOC_028864
TCONS_00055892 other upstream 447770 30993186 ~ 30993349 (-) True XLOC_028865

Expression Profile

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