RNA id: TCONS_00002877



Basic Information


Item Value
RNA id TCONS_00002877
length 3303
lncRNA type read_through
GC content 0.34
exon number 2
gene id XLOC_000684
representative True

Chromosome Information


Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 53266400 ~ 53278288 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence


GCTTGTTGTATTCACTGAATGCTGCCACaagaaagtgatttttgcataatagtgaTTTAAATGCATAAGAtaccctttttaaaaaaacacacaagacaacagacttttaaaaacatttccttCAGATATATTTGAAATTCAAAAAGGTGTCAGAAATATCGTTTCACATCTctatattattagacatttagtAAAAGGCCAAATATCAGACACAGTAAAGCTCACGTTTATTTCCATGACACTAAATCTtcatccacactgtaaaaaatacacgtaaataagcagttttccatattgtgttaatcatgtttttatttttcctcatttatttatgcttttgaactgcattatgaATGCTTAATATTTCTTCAAACAAATTTTAACCttaaagttggaaaaagtgacttttattaacatttgtaatggtttaaagtgatgtattgtctgcgttggtgttgtaaataatgatacaaaagccttgtaataaactgccagcacatttCCTGtgatttatttctatatataacATTTCTTAtgcataatattattttaaactactaaacaTGTCACTAAAACTCACTGTGACACTGTCGAAGtacattttcaacatcaaaagtggacagagcagagatcaacatcccataatgcaattcagaaccataaataaacaatacagaaGCTGTTGATCAACagatattgtttacagtgtacatcTGACCTTCTATTGTGTTTTTCCACTTGCTCCTATACTCAGATTAGAGAGTGAATCCTGGACCTCggcctcctcctcttcatcatcatcatcatcttcgtcCTCTTCTTCATCGTCCTCCTCCTCATCATAATCATCGTCCTCCTCCTCGTTGTCATCATCATCCAgatatcctcctcctccacctccagaTTCCAGATTTTTCCAGTAAGAGCTGTATCCTGACGCTCCGtatccatcatcatcatcgtctgCTCCGCTCTGACGGCCAAATTTGTGTGTTCGGGCTGCAGGAGGAATCAATCATGCGatgagcaaacaaaaacagcaagtTTCAGAAGACTGGACGAACAGAAAAACGCTTGATTGTGTATTatactgagtgtgtgtttgggggTCAGCAGGAGGAAGTGTGTATCCTCACCACACTGTGCGCACATGGGAAGTTTCTGCACCCATGAGCAGAAATAGCAGAACGCCCTGTTCTTTTGCCTCCTGAAAACACAGAAGGACAAAACATGATTATTAGTCCAGTTAAATAATAAACCTGGCTAATACTTAATCAGAAATACATATAATTACCTTTGACACTTGTCACATTCctaaaaaatggaaataaaaagagGTTTGGTCAGTACATGAATATACCAAACTAACAACAACTTACAGTAAAATAGAAACATGTTATAACATTACAATTTTAGGTTAGATCTAAAGTAGGTAGGAgctttgaaataaattaaaaatatatattaaattactttGGGCTTgaaattattacaataaataaatgttaatagagaatatcttctgtaaaaaaaaacaggtcaaatATCTTtataatgttaattatttataatgttaatgttaacatTACTCATgcaaaaaagaaatgaatatttatttgtattttataagaTCCGTTGTTAagtttttgtacatttaatacattatatacattaaaATGAGGCGATGCACAAATATTCATATTACTGAAGTTAAAGACGTATTAACGCACTGCAGTGGTATTGATCATAACGCATTTGCTGATTTAGATAAATATTCCCAATTCACATTGCAATGTAAAACAGACTCATATTACTACAACTACGTTCATGCACTATAGTGGTATTGatcctcaaaatcaccccagaatggataaaaacatccccagCAACCCACAAAGGTTAAATGATCTGCATTTTAGACATTCATTTAAATCGCTgtgtaaagtaaaaatgtaatttgttcattttaaagtgtGAAACACCAGTAATTACTCGTGTCAAGGCCTGAAATGTCTCACCATGGCGGCGTTACACGGGTGTTTAGCCACATCCACAGTTTCTCTATTCACACGACTCTGCTTTTCCCGCTCCTTTCTGCTCTCAGCCTTCTTCCGAGCTCCAGTCTTCTTCTTGGGCATCTTTTACCTTCAAAAACAGAAATGAAACGTGTTCAACTTTTACTCGCTTCAATCTGAAGCACACTGCGACTCTCTGTTGCTCGGGTTTGATGAACTCCTATGAGTGACGTAACAAACCTGTCAGTCACACGGTTGCTTTTACAACACTAGCGCTTTGGTGTACTGTTTAACACTATATAAATGACCACGTCTGTAAAGCGAAACATACCTGAATAAAAGTTTAATCGAGGAGAAAAAGACAGGTTGCTCACAGCTGATCCCGGTGACTGTGTAACAGTAAGTGGTTCCGGGTGGAAACGTGACCACCAGGCGAAGTTTGTAGTTCCGTTAATATTTACTAGAGTTGTATTTTAAACGTAATAAATCTTTctgtggaaaatatttaaaacattttattcaaaatatctaaaTGATATAAAACCCGTATAAATAAGTGGATTTTGAATAGATATGGAAGATGTAGTCCCACTCCATCACAGAGGAGGGCAACGCACATGTTCAGAGGTGTCCGTAACGGACTGGTTGCCAGATTATGTATAAATCCTCTTCTGCACACTGGATTATTTCAGAGTGAATGCTGCTTATTTTACACTTACTGAATGGAGGAGGATGCATCGtcttttaatattacaaaatctTATGTtggcaaaacttttttttttttacaataaatagtCATAATTCAGCTATTTGTACCCCTTTCCAAAGAGAAATTATCACTGTACTTTATATTCAATCCTATTGTATGTCTTTATTAAAGAATCAACTGATTTGCTGGAAATAAGTGTGGCTGTTACCACAAAAATAGCAtgttagaaataaaattaaaagaaatattcTATTAATTTCTCCACAAATTTTAtccagcagattttttttttacaaaaattacaCAATGGAATAGATGTGAATAGTATTTTTGTAGTAAATTTGAGGAGACTGCTTTACACTTATTTGACCATTGTGCATGCTCAGTCAACTTACGGAGTGAGGtgcaaaaatttattaataacaattttcaGTGTTCTAAAGCCCTTTTATTGTTGTGGAAAATGTACTTTTTGGCTTTACTATGTACCCTAGTCAAGAGGAAAATcgcttttatttaattaatttacttattttgcttacaaTATTTTACTTTCATTAATGTAAATGTCCCaat

Function


GO:

id name namespace
GO:0048731 system development biological_process
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:0006355 regulation of transcription, DNA-templated biological_process
GO:0035270 endocrine system development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0048513 animal organ development 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:0007275 multicellular organism development 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:0048562 embryonic organ morphogenesis biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0072175 epithelial tube formation biological_process
GO:0048568 embryonic organ development biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0048856 anatomical structure development 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:0048598 embryonic morphogenesis 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:0009952 anterior/posterior pattern specification biological_process
GO:0035113 embryonic appendage morphogenesis biological_process
GO:0035118 embryonic pectoral fin morphogenesis biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0035138 pectoral fin morphogenesis biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0035148 tube formation biological_process
GO:0007389 pattern specification process biological_process
GO:0050794 regulation of cellular process biological_process
GO:0007399 nervous system development biological_process
GO:0032501 multicellular organismal process biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032502 developmental 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:0007417 central nervous system development biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0007420 brain development biological_process
GO:0033333 fin development biological_process
GO:0033339 pectoral fin development biological_process
GO:0030901 midbrain development biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0030902 hindbrain development biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0060322 head development biological_process
GO:0009790 embryo development biological_process
GO:0044424 obsolete intracellular part cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0005634 nucleus 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: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:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA 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

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_00001155 lncRNA upstream 184467 53007769 ~ 53081933 (+) False XLOC_000682
TCONS_00001156 lncRNA upstream 240169 53007778 ~ 53026231 (+) True XLOC_000682
TCONS_00002876 lncRNA upstream 458557 52807632 ~ 52807843 (+) True XLOC_000681
TCONS_00001143 lncRNA upstream 700450 52563268 ~ 52565950 (+) False XLOC_000675
TCONS_00001139 lncRNA upstream 755644 52495043 ~ 52510756 (+) False XLOC_000673
TCONS_00002878 lncRNA downstream 41871 53320159 ~ 53320674 (+) True XLOC_000686
TCONS_00002879 lncRNA downstream 42643 53320931 ~ 53321338 (+) True XLOC_000687
TCONS_00001162 lncRNA downstream 96205 53374493 ~ 53378079 (+) False XLOC_000690
TCONS_00001164 lncRNA downstream 101704 53379992 ~ 53385083 (+) False XLOC_000690
TCONS_00003168 lncRNA downstream 101704 53379992 ~ 53387634 (+) False XLOC_000690
TCONS_00001152 mRNA upstream 41279 52929185 ~ 53225121 (+) False XLOC_000682
TCONS_00001153 mRNA upstream 41512 52953423 ~ 53224888 (+) False XLOC_000682
TCONS_00001151 mRNA upstream 445446 52792439 ~ 52820954 (+) True XLOC_000680
TCONS_00001150 mRNA upstream 502953 52754085 ~ 52763447 (+) True XLOC_000679
TCONS_00001149 mRNA upstream 530275 52735484 ~ 52736125 (+) True XLOC_000678
TCONS_00001158 mRNA downstream 1573 53279861 ~ 53299024 (+) True XLOC_000685
TCONS_00001159 mRNA downstream 43590 53321878 ~ 53361108 (+) True XLOC_000688
TCONS_00001161 mRNA downstream 96166 53374454 ~ 53388914 (+) False XLOC_000690
TCONS_00001163 mRNA downstream 99144 53377432 ~ 53387439 (+) False XLOC_000690
TCONS_00001167 mRNA downstream 236801 53515089 ~ 53535565 (+) True XLOC_000693
TCONS_00001154 other upstream 205203 52999832 ~ 53061197 (+) False XLOC_000682
TCONS_00001126 other upstream 1130898 52130164 ~ 52135502 (+) False XLOC_000662
TCONS_00001119 other upstream 1582782 51683519 ~ 51683618 (+) True XLOC_000655
TCONS_00001111 other upstream 1800818 51465468 ~ 51465582 (+) True XLOC_000651
TCONS_00001097 other upstream 2193293 51066782 ~ 51073107 (+) False XLOC_000645
TCONS_00001160 other downstream 86222 53364510 ~ 53368034 (+) True XLOC_000689
TCONS_00001166 other downstream 109477 53387765 ~ 53387881 (+) True XLOC_000690
TCONS_00001180 other downstream 774816 54053104 ~ 54061210 (+) True XLOC_000705
TCONS_00001186 other downstream 907751 54186039 ~ 54186156 (+) True XLOC_000710
TCONS_00001221 other downstream 1850177 55128465 ~ 55128579 (+) True XLOC_000733

Expression Profile


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