RNA id: TCONS_00027354


Basic Information

Item Value
RNA id TCONS_00027354
length 1523
lncRNA type intronic
GC content 0.36
exon number 1
gene id XLOC_013479
representative True

Chromosome Information

Item Value
chromosome id NC_007129.7
NCBI id CM002902.2
chromosome length 51023478
location 28601593 ~ 28603115 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

tgggctatatgcacgcaTTACTTCCGCGTTTTGTCTAAGGCCGCGGTCCAGCTTCCGGTCTGGGTGATTTTAAGCGGAGTTGAACAGTATTATGGCAGAGTCGTCAATATTTACTCGCTGTTTGCGAGTAAATTATGGTCAACGATTTGCAAATGATTGTCCGGATGTGCTCTACAACACCGCAGAGCAAAACTTGAGAAGGGTTTCAAGTTGTATGCATCTTCCTACCTGTGCAATTATGAAGGTAAGTTCAGCTAGCCTGAAGGCTAACTTTAGCGTTAATACTCTTACGATCCGTCCATCTGCAGCTTTATCACgtaagtaaaaataatcatatgtGTACGTAATTCTGTCTCAAAGTGTCAGGTAAAAACAGGGCAGGAATAAGATCTCAGTGAGAGCTCATTACTACCGATAGATCTATGAAGAAATCGGAGTCTCCTCACCAGCTGAGAGTAGGACAGCATACATGTGAAATTCTGTCCCATTCATACTTTTACTGTTCTAAAGTGAGCACCACTGTTCAGTTCTGATAATTACAGAGACACAGATGCTGTCTTAGCTTGTaagcatgattattgagcaagatatatattaggaataaaataatacaatgccgTTCCATCCACAACAGACAAATAGCACTGTGTCAATGCTGATATTTATTGCTGAAACAGTGGAGATGACAGATGCAGTGTAACAGTGTAGATAGCATGCTTTCTATTTAGTcgataacattgtaattaaatgggagggtgacccaaaacaataaggtgtcattagttaatttcacatcaacaatttgtctatttcaatattttttagttttttacattaatgaacaaatgcttattcattgtgcttgttaactcacaatgtaatagctaatgttaacaagcatgactttggatttttattcattagtaaattagtttaacaatgttaaatattaaatagttattttaatagtgagcaaatacattaattaatgaaaccttattttaaagtgtgactaaagggagctacttttaaatcatttaaattaatgatttactgtgtagtttaatcggatgatattgctgcagatgcctttaaaaagaagatattttgaagaaagctgaaaacctgtaaccattgacttccatagtatgaaaaagaaCTACTTTGAATATCAGTGGTtgcaagtttccagctttcttcaaagtatttttgtttgtgttaaacatcagaaagaaactcaaacaggtttggaacaagtgaagaatgaggaaatagaattttcagttttgagtgaactgcctttaatgactccctttaaaaacctattaatattcttgtttctgttttctagGTAACATGAGATTCAGAGCTAGAAAATTTTATGTGTTACTCCATCCTGGAGCGGACATCCGTCAGAAGATCCATGCCATCGTCTGCTAGTTAATAGCTCCTGCTCTTGTGTGGCTGAGAGtgggatatgcaaacatttggttgctttgcttttccagacagcccattactct

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:0001708 cell fate specification biological_process
GO:0045995 regulation of embryonic development biological_process
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0001711 endodermal cell fate commitment biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0001714 endodermal cell fate specification biological_process
GO:0016070 RNA metabolic process biological_process
GO:0007492 endoderm development biological_process
GO:0007498 mesoderm 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:0008152 metabolic process biological_process
GO:0065007 biological regulation 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:0090304 nucleic acid metabolic process 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:1903224 regulation of endodermal cell differentiation biological_process
GO:0010453 regulation of cell fate commitment biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process 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:0010468 regulation of gene expression biological_process
GO:0044238 primary metabolic process biological_process
GO:0010470 regulation of gastrulation biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0007369 gastrulation biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0048646 anatomical structure formation involved in morphogenesis 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:0003002 regionalization biological_process
GO:0007389 pattern specification process 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:0060795 cell fate commitment involved in formation of primary germ layer biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0034641 cellular nitrogen compound metabolic process 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: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:0042659 regulation of cell fate specification biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0042663 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:0010862 positive regulation of pathway-restricted SMAD protein phosphorylation biological_process
GO:0005634 nucleus cellular_component
GO:0043227 membrane-bounded organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle 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:0003690 double-stranded DNA binding molecular_function
GO:0097159 organic cyclic compound 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:1901363 heterocyclic compound binding 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_00026589 lncRNA downstream 277807 28320730 ~ 28323786 (-) False XLOC_013478
TCONS_00027353 lncRNA downstream 379845 28204344 ~ 28221748 (-) True XLOC_013477
TCONS_00027351 lncRNA downstream 781641 27802551 ~ 27819952 (-) False XLOC_013475
TCONS_00026972 lncRNA downstream 781687 27818134 ~ 27819906 (-) True XLOC_013475
TCONS_00027352 lncRNA downstream 781879 27817198 ~ 27819714 (-) False XLOC_013475
TCONS_00027355 lncRNA upstream 794825 29397940 ~ 29403016 (-) True XLOC_013485
TCONS_00027356 lncRNA upstream 2149369 30752484 ~ 30753423 (-) True XLOC_013493
TCONS_00027357 lncRNA upstream 2357057 30960172 ~ 30961069 (-) True XLOC_013495
TCONS_00026613 lncRNA upstream 2446374 31049489 ~ 31051597 (-) True XLOC_013496
TCONS_00026973 lncRNA upstream 3120991 31724106 ~ 31724812 (-) True XLOC_013500
TCONS_00026587 mRNA downstream 704376 27843840 ~ 27897217 (-) True XLOC_013476
TCONS_00026586 mRNA downstream 743470 27843776 ~ 27858123 (-) False XLOC_013476
TCONS_00026585 mRNA downstream 972809 27590442 ~ 27628784 (-) True XLOC_013473
TCONS_00026583 mRNA downstream 1284994 27309404 ~ 27316599 (-) True XLOC_013470
TCONS_00026580 mRNA downstream 1623653 26967414 ~ 26977940 (-) True XLOC_013466
TCONS_00026591 mRNA upstream 333946 28937061 ~ 28938912 (-) True XLOC_013481
TCONS_00026595 mRNA upstream 1282075 29885190 ~ 29896367 (-) False XLOC_013486
TCONS_00026596 mRNA upstream 1285844 29888959 ~ 29898369 (-) False XLOC_013486
TCONS_00026597 mRNA upstream 1286293 29889408 ~ 29898351 (-) False XLOC_013486
TCONS_00026600 mRNA upstream 1319824 29922939 ~ 29925717 (-) True XLOC_013488
TCONS_00026588 other downstream 277438 28320730 ~ 28324155 (-) True XLOC_013478
TCONS_00026584 other downstream 1266534 27334941 ~ 27335059 (-) True XLOC_013471
TCONS_00026582 other downstream 1294553 27306924 ~ 27307040 (-) True XLOC_013469
TCONS_00026581 other downstream 1464611 27136865 ~ 27136982 (-) True XLOC_013468
TCONS_00026577 other downstream 1706890 26880472 ~ 26894703 (-) False XLOC_013464
TCONS_00026590 other upstream 192444 28795559 ~ 28795675 (-) True XLOC_013480
TCONS_00026592 other upstream 481943 29085058 ~ 29085174 (-) True XLOC_013482
TCONS_00026593 other upstream 610018 29213133 ~ 29213249 (-) True XLOC_013483
TCONS_00026594 other upstream 704410 29307525 ~ 29307641 (-) True XLOC_013484
TCONS_00026598 other upstream 1292496 29895611 ~ 29898361 (-) True XLOC_013486

Expression Profile

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