RNA id: TCONS_00052860


Basic Information

Item Value
RNA id TCONS_00052860
length 2092
lncRNA type read_through
GC content 0.41
exon number 2
gene id XLOC_025890
representative True

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 61357205 ~ 61384192 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TACTCAGATAATGTCAGCTATTAATTGTGTGCCTCAGGGGTCAGTGCCATCATTTATATTTTACCTTTAGGTCATACATTTCATTATTATAGTCTTCATTTCCATTTTGTGCTGATGATACACAATTTTAAATTTCCATAAGACctagaattaaatttttttatcatattGGTCATTCATAACTTTGTTCAAGTTAAATGAACAAAAGCCCACCACTGGGTGTGTTTTATCTAAAGCTCAGTCTTTTACTCTGTTCACTGATAATTCCCATGTTAATTTCTCTACTTTTCACACTCAATCTCTCACACCAGAATTATCTGATGTTCAGACATGAAACACCTTTTCACTGGAGAGAATGTTTTGCTGCATTGGCGTCATTTGTGcagcttttctccagtgtggatgtTCATGTGTTTCTTAAGCCTCTCTAAGTATGTGAAACTCTGagaacactgatcacatgtgtacggcttctctccagtgtgaatcctctcatgtcttTTCAGGGTTCCTAAAAGACTAAACCTCTTGCTACACTGTGAACACTTgtacagtttctctccagtgtgaaccttCTCATGCGATTTTAGGGATCCTAACAGACTAAatctcttgtcacagtgtgaacacttgaaaggtttctctccagtgtgattcCTCTCATGCAGTTTCAGTTGTGTAGCTGTAATATAAGTCTTCTTACACTTAAAGCACATATACTGTCTAACAGCAGTGTGGGACTTCTGATGCCTTTTTAATTTGGACTCCAATGTATAACTCTTTTCACACACAGGACATGAATAAGGCTTCTCGCTTCTATGAAGTGCAAGATGGACCTTCAGCTTTGAAGgcctcaaaaatgttttgctgcagtgatcacatttgtgtggtttctctccggtgtggatcttcatgtgctGAGTAAGGCGtgatgataggctgaaactcttcccacactgagaacatgtgaacggtttctctccggtgtggatcatcatgtgttgattaagggatgatggtTCAGAGAAACTcgtcccacactgagtacatgtgtgtggtttctctccagtgtgggtcctcatgtgtCTATTACGGTGTGATGagtggctaaaactcttcccacactgagaacatgcatatggtttctctccagtgtggatcatcttGTGTTTACTAAAGTTTGACAagtgtctgaaactcttcccacactgaggacatgtgaatggtttctctccggtgtggatcctcatgtgctgTTTAAGGGATGATTGTTGGCTGAAACTGGCCCCACACTGAGAACATATGAATGGTTTtgctccagtgtgaatcatcatgtgttgattaagctgtgatgattggctgaaactcttcccacactgagtacatgtgaatggcttctctccggtgtggatcctcatgtgttgtttAAGTTGTGATGAGTCTCtgaaattcttcccacactgagtacatgtgaatggtttctcatCAGTGTGGATCgtcatgtgtttattaaaggTTGATGAGTCTCtaaagctcttcccacactgagtacacgAGAATGgtctttctccagtgtggatcctcatgtgttgattaaggtgtgatttGTGTTTGAAAGTCTTTCCACACAGTTTacatgtgaatggtctctctccgGTGTGGACCCTCATGTGTACATTAAGGTCTGATGAGTGTaaaaaaactctttccacaccgagtgcatgtgaagggtttctctccggtgtggatcctcatgtgttgattaagttGTGATAAGTATtggaaactctttccacactgagtacacttgaatggtttctctccggtgtggatcctcatgtgaagcTTAAGACTCTTTTTGGTTctaaagctctttccacactgagtgcaggtcaaacgattcttgtctctcctttttaaaaCACCAGAAGTCTGTAAATTAGGGTTTTTCCCAGCTTCAACATGACGTTCCTCCTCTTCACTCTCCTTATTCTCCCCAAATGGGTCTGaaacaaagtttattttttagtaagtcaataaaaaataaatgtaggaTGAAAATTTGAAGTGTAAAGACTCTGTAAACACTGGC

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: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: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:0010468 regulation of gene expression 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: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: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:0005634 nucleus 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: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: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
ko03070 Bacterial secretion system
ko05164 Influenza A
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00052852 lncRNA upstream 11026 61357205 ~ 61360319 (+) False XLOC_025890
TCONS_00052850 lncRNA upstream 19339 61338539 ~ 61352006 (+) True XLOC_025888
TCONS_00052851 lncRNA upstream 27637 61340693 ~ 61343708 (+) True XLOC_025889
TCONS_00052849 lncRNA upstream 330230 61039073 ~ 61041115 (+) True XLOC_025885
TCONS_00050751 lncRNA upstream 337850 61030343 ~ 61033495 (+) True XLOC_025884
TCONS_00052863 lncRNA downstream 670502 62054694 ~ 62061838 (+) False XLOC_025898
TCONS_00052865 lncRNA downstream 670502 62054694 ~ 62061838 (+) False XLOC_025898
TCONS_00052867 lncRNA downstream 670502 62054694 ~ 62061838 (+) False XLOC_025898
TCONS_00052868 lncRNA downstream 670502 62054694 ~ 62061838 (+) False XLOC_025898
TCONS_00052866 lncRNA downstream 670502 62054694 ~ 62061838 (+) False XLOC_025898
TCONS_00050753 mRNA upstream 82571 61221194 ~ 61288774 (+) True XLOC_025887
TCONS_00050752 mRNA upstream 184240 61185660 ~ 61187105 (+) True XLOC_025886
TCONS_00050749 mRNA upstream 336796 60957512 ~ 61034549 (+) False XLOC_025884
TCONS_00050750 mRNA upstream 337051 60962410 ~ 61034294 (+) False XLOC_025884
TCONS_00050748 mRNA upstream 530151 60828813 ~ 60841194 (+) True XLOC_025882
TCONS_00050754 mRNA downstream 7444 61391636 ~ 61398938 (+) True XLOC_025892
TCONS_00050755 mRNA downstream 35887 61420079 ~ 61421085 (+) True XLOC_025893
TCONS_00050756 mRNA downstream 138567 61522759 ~ 61524436 (+) False XLOC_025894
TCONS_00050757 mRNA downstream 138843 61523035 ~ 61533097 (+) False XLOC_025894
TCONS_00050758 mRNA downstream 147023 61531215 ~ 61533846 (+) False XLOC_025894
TCONS_00050717 other upstream 2660590 58702320 ~ 58710755 (+) True XLOC_025845
TCONS_00050699 other upstream 3200931 58168523 ~ 58170414 (+) False XLOC_025821
TCONS_00050692 other upstream 3372786 57997990 ~ 57998559 (+) False XLOC_025817
TCONS_00050688 other upstream 3541426 57825939 ~ 57829919 (+) True XLOC_025812
TCONS_00050682 other upstream 3731897 57636374 ~ 57639448 (+) False XLOC_025808

Expression Profile

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