RNA id: TCONS_00039683


Basic Information

Item Value
RNA id TCONS_00039683
length 1730
lncRNA type inter_gene
GC content 0.45
exon number 2
gene id XLOC_019769
representative True

Chromosome Information

Item Value
chromosome id NC_007132.7
NCBI id CM002905.2
chromosome length 45934066
location 37594351 ~ 37632708 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CGAGCCGCTGAACTAATAAAACTCGTCTGACCTGATTTCCTCGGTCGGATGTAGAAGGAAAACTATTCATGTCAACAAGGGCAAATTTCTGTTGTGGTTGCGGCCGGAGACTATTGACAGGCTATATATCATGTCAGCCAAATGAAAGTAATGAATCATGTGGATTATTAACCCTCTATAACTCTGTAAGCAGCGTTCGCCCTTtcactaaacctctaaaataaagcaaatgtgtTTCATTTCAATGCTCAAGAAGAAAAAAGCTCATCTGCATCACAAACTCTGGTGTTCCCTTATTAGTGTgcagtatttcaagagttcacacttggctgatgattgatagtaaagcggTTTGGCATGcagtcccaggagagagccctgagctgatCCGGGGCTTTCATCGGGAGAGTgggggagtctgagctcaggtaggtcttgagagctccGCTGAATTTGTTTGACCTATTGCTtgattattaggggttgccacagtggaattaaccaccaactatgccagcatatgtttatgcCTTGAATGCCAAGTACTAAAACATTCATGCactgtgccaatttggtttatttgaTTCACTTATACTACATATCtgtggactgtgggaggaaaccggagtacctgggaGAAACCCATGAGAGCccggggagaccatgcaaactccacataaaagcgccaactggcccagccgggactcaaacctgtgagctacttgctgtgaggcgacagtgttaaccactgagctgccATGCTGCCCTGTCCTGGGTTACTCTAGAAAAGagagggaggagtaggggtggattcTTCAAGGGAAAGATGACTAAGgaaTGTGTTTGCGTGTGCAGACCCTGAACCGTCTCTGCCTTGATCCTGAATGAGTCACTGCTGCAGTGCTCTGTGGGCGGAGCTAAGACTGGATCCCCTGCTGCAAACTCAGTTAAACACACTCGCATGCACGATTTtctccctctctcacacacacacacacacacacacacacactgcatgctGTCACATCCGGCCCTCAGGTCTACAGCGTGTCCTATAATTAGCCGCCTGCACAACTTATGGCCTCAGAATGATTTAACCAAATGCTTCAGAATACCATTCTACTGAGACAAAGACATGGAAAGATGGCTGAAAGAAAAAGGTGGAAGCTGGAGTCTAAACCTAACGTAGTGGCGTGTGCCTTATTACATTGTGGAGATtacaatgtccccacaagtatagcaataccagtcaatTTTGACATCTTTTTGTGTGTTCCCCTATGaggaaaacggctcataaatcacacagaatgaagatGTAAAGATGCAGACTGTTTCCCATGAGGGTTGGGATTATGGTTTAGGTTTGTGTAGGGGTATAGAACACAGAGTGTGCTGTATAAAACCATTACGTCTataggaagtccccataaagatagctgtacaattgtgtgagtgtgtgtgtgtgtgtgtgttttctgaccGTCCTCACAGAGCTCTCccaaaacaaaatgtgtttttgtcattAGGGTGAGTTTGTGGTGGGAGAAGAGGCCCCTCTCTGCCTTTCCAAGGCTATTAGATGGTCAAAAACAGCAGAACGACCCAGCAAACAAAGCAATTGTGAAGAACCTCCAGTCACTACAATAAAACCCAACCTGCTTTGAATTTGTCTGGCAGACATTTTTTGCGTGTCATAGTTCAATATCTCATCCTACACATGAAATGTG

Function

GO:

id name namespace
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0016070 RNA metabolic process 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:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0009059 macromolecule 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:0044770 cell cycle phase transition biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:1904029 regulation of cyclin-dependent protein kinase activity 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:0044260 cellular macromolecule metabolic process biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic 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: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:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0000307 cyclin-dependent protein kinase holoenzyme complex cellular_component
GO:0044424 obsolete intracellular part cellular_component
GO:0044428 obsolete nuclear part cellular_component
GO:0070013 intracellular organelle lumen cellular_component
GO:1902911 protein kinase complex cellular_component
GO:0044464 obsolete cell part cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0005623 obsolete cell 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:0043229 intracellular organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0043233 organelle lumen cellular_component
GO:1902554 serine/threonine protein kinase complex cellular_component
GO:0043565 sequence-specific DNA 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:0019887 protein kinase regulator activity molecular_function
GO:0016538 cyclin-dependent protein serine/threonine kinase regulator activity 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:0000978 RNA polymerase II cis-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:0000987 cis-regulatory region sequence-specific DNA binding molecular_function
GO:0140110 transcription regulator activity molecular_function
GO:0001067 regulatory region nucleic acid binding molecular_function
GO:1990837 sequence-specific double-stranded DNA binding molecular_function
GO:0019207 kinase regulator activity 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_00038908 lncRNA downstream 23759 37595791 ~ 37597916 (-) False XLOC_019769
TCONS_00038907 lncRNA downstream 23759 37595791 ~ 37597916 (-) False XLOC_019769
TCONS_00039681 lncRNA downstream 39561 37578746 ~ 37582114 (-) True XLOC_019768
TCONS_00039254 lncRNA downstream 1225769 36386786 ~ 36395906 (-) True XLOC_019758
TCONS_00039680 lncRNA downstream 1566268 36054484 ~ 36055407 (-) True XLOC_019757
TCONS_00038913 lncRNA upstream 12263 37644896 ~ 37650316 (-) True XLOC_019770
TCONS_00038925 lncRNA upstream 335407 37968040 ~ 37971155 (-) False XLOC_019775
TCONS_00039256 lncRNA upstream 824650 38457283 ~ 38458134 (-) False XLOC_019779
TCONS_00038931 lncRNA upstream 824650 38457283 ~ 38463146 (-) True XLOC_019779
TCONS_00038937 lncRNA upstream 972760 38605393 ~ 38618668 (-) True XLOC_019781
TCONS_00038906 mRNA downstream 186513 37423717 ~ 37435162 (-) True XLOC_019767
TCONS_00038903 mRNA downstream 426836 37183124 ~ 37194839 (-) False XLOC_019766
TCONS_00038905 mRNA downstream 427006 37185751 ~ 37194669 (-) True XLOC_019766
TCONS_00038904 mRNA downstream 427310 37183902 ~ 37194365 (-) False XLOC_019766
TCONS_00038901 mRNA downstream 546133 37049427 ~ 37075542 (-) True XLOC_019764
TCONS_00038909 mRNA upstream 5046 37637679 ~ 37650330 (-) False XLOC_019770
TCONS_00038910 mRNA upstream 5156 37637789 ~ 37650271 (-) False XLOC_019770
TCONS_00038911 mRNA upstream 5502 37638135 ~ 37650316 (-) False XLOC_019770
TCONS_00038912 mRNA upstream 5521 37638154 ~ 37661570 (-) False XLOC_019770
TCONS_00038914 mRNA upstream 35540 37668173 ~ 37733571 (-) False XLOC_019771
TCONS_00038902 other downstream 548595 37072951 ~ 37073080 (-) True XLOC_019765
TCONS_00038875 other downstream 3085301 34430460 ~ 34536374 (-) True XLOC_019748
TCONS_00038861 other downstream 4484592 33136948 ~ 33137083 (-) True XLOC_019739
TCONS_00038828 other downstream 5539526 32076707 ~ 32082149 (-) True XLOC_019725
TCONS_00038827 other downstream 5540297 32073529 ~ 32081378 (-) False XLOC_019725
TCONS_00038929 other upstream 430564 38063197 ~ 38063314 (-) True XLOC_019777
TCONS_00038943 other upstream 1094466 38727099 ~ 38730018 (-) False XLOC_019784
TCONS_00038955 other upstream 1634592 39267225 ~ 39267306 (-) True XLOC_019791
TCONS_00038972 other upstream 2445318 40077951 ~ 40081929 (-) True XLOC_019807
TCONS_00038990 other upstream 2770627 40403260 ~ 40411647 (-) True XLOC_019813

Expression Profile

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