RNA id: TCONS_00003088


Basic Information

Item Value
RNA id TCONS_00003088
length 1402
lncRNA type antisense_over
GC content 0.38
exon number 2
gene id XLOC_000421
representative True

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 35896392 ~ 35898437 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ttgtttttTGATAATGAAACACTTTAATTGAATCTTCCAGTAGAGACTTGATATGGAATAAAACTGCTTTCTGAGAGTACAGGTAAGCAAGAACAGCACGAAAAAAAAGGGACAGAGACGAGAAGCCACTTAAGAAAGTGCAAATATGAAGGAACAACATTATATATTTtcttcaaaaaatacaaaaatgtgtacattttaacAGTGGATGGGATTTCACTatggataaaaaaaatcttagaggAAGTTAATCAAAAATTAACAATTTCTTTTAACAAAACAATATCACTAGTGCCATTTAAATCTTAGTCAacacaaaagaaatcagtttacTCTAAAAATGCACAGGCATTATGTAAGCTTTTCCTCCTGCTTTTCTAAAGGTGTTTTATGAAACATATTCGTGCCATTTCAGAATAAAAGTAACAAGGACGTTCTTCTGTGCAGCTCAGTGGTGAGTCCACAATACTGTACATGGACAAAGAAAACGATGCCTGCTTCTGCTCTCATTTGTAGACATCAAACTTACAATCCCGGGGATCAAACCACACTTGCAAaacaaccaacaacaacaaaaaaaacagactgcacaacactttccttactaataatAAGTACATTTACACACCCACTTTTAAAATCAGTCGAACGCAACTGTGATGAAAGTAGCGCAACATTTGCACGAGTTCCCTACCCACTACTTACATGCCCAACTCCCCATACATTTATCCCATTCAACGGTTTTCGTATTCAAATATATGCATTTTTCATTCTACATTAgacatttttgtctgtttttgctACATGTTTTTCTCCTTTCCAGCTGTGAGAAATGTTGCATTAATAACCTCGTTATCCTTCTCACAGCTTCATGCCGCTCAGTTCACTTAAAGCATTATAATTCTGCACAAGATTTATGTTGTGGTCTTTCAGACGTGTTCACGCTACTCTACTCTGTACAACACTGTTCTAGTCTCTAAGCTAGGATGCAGATCTTTTTTTGTCAATGGAATACTGATTGTAAACTGGGAAAAGGATGGGAAATGCAAAAGAAatagaaagaaaacaaacaaattggctttaaaaaagtcaaactTCTTACGAACAAGACCAGAGGAGGATACTCGCCACAAGTATGATGCCTCATCATTAAACATGCTTGGTCACACAGAGTTGTCAAGTATCTTCCAGATTCTCACGGGCTGAAAACTGAGGACTCTTCAGCCAGATTCGATGACCCCCACCCTAACAAACTGCCTTCAAGTAGTACACAAAGCCAACCCTCTAGTCATCTCCCACCCCTCCCTTCAACCAATCAGCTTCTACATGTGAACCCAGACTGACAGGGTTGCATCAGCAGTTGCTTTATGGTCAGCTCCATCTAGGACACTGAAGAAATGGG

Function

GO:

id name namespace
GO:0048729 tissue morphogenesis biological_process
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:0021536 diencephalon development biological_process
GO:0001732 formation of cytoplasmic translation initiation complex biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0002009 morphogenesis of an epithelium 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: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: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:0032925 regulation of activin receptor signaling pathway biological_process
GO:0032926 negative regulation of activin receptor signaling pathway biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0007275 multicellular organism development biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0006413 translational initiation biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0031323 regulation of cellular metabolic process biological_process
GO:0060429 epithelium development 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: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: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:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0050789 regulation of biological process biological_process
GO:0050794 regulation of cellular process 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:0002183 cytoplasmic translational initiation 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:0030900 forebrain development 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:0005852 eukaryotic translation initiation factor 3 complex cellular_component
GO:0033290 eukaryotic 48S preinitiation complex cellular_component
GO:0016282 eukaryotic 43S preinitiation complex cellular_component
GO:0070993 translation preinitiation 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: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: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_00003086 lncRNA upstream 802880 35034294 ~ 35093512 (+) False XLOC_000415
TCONS_00003087 lncRNA upstream 802880 35076467 ~ 35093512 (+) True XLOC_000415
TCONS_00002853 lncRNA upstream 1035335 34857368 ~ 34861057 (+) False XLOC_000414
TCONS_00002852 lncRNA upstream 1037069 34857368 ~ 34859323 (+) False XLOC_000414
TCONS_00002854 lncRNA upstream 1037069 34858806 ~ 34859323 (+) True XLOC_000414
TCONS_00003089 lncRNA downstream 58024 35956461 ~ 35963062 (+) False XLOC_000423
TCONS_00000721 lncRNA downstream 58024 35956461 ~ 35963062 (+) False XLOC_000423
TCONS_00000722 lncRNA downstream 58056 35956493 ~ 35960055 (+) False XLOC_000423
TCONS_00000727 lncRNA downstream 94860 35993297 ~ 35994209 (+) True XLOC_000424
TCONS_00002855 lncRNA downstream 752643 36651080 ~ 36657815 (+) False XLOC_000428
TCONS_00000718 mRNA upstream 28449 35862550 ~ 35867943 (+) True XLOC_000420
TCONS_00000716 mRNA upstream 60529 35790082 ~ 35835863 (+) False XLOC_000419
TCONS_00000713 mRNA upstream 286733 35494837 ~ 35609659 (+) False XLOC_000418
TCONS_00000715 mRNA upstream 288457 35495368 ~ 35607935 (+) True XLOC_000418
TCONS_00000711 mRNA upstream 405387 35473219 ~ 35491005 (+) False XLOC_000417
TCONS_00000719 mRNA downstream 50832 35949269 ~ 35954313 (+) True XLOC_000422
TCONS_00000720 mRNA downstream 57998 35956435 ~ 35970259 (+) False XLOC_000423
TCONS_00000723 mRNA downstream 58092 35956529 ~ 35963260 (+) True XLOC_000423
TCONS_00000724 mRNA downstream 87376 35985813 ~ 36002774 (+) False XLOC_000424
TCONS_00000725 mRNA downstream 87456 35985893 ~ 35998397 (+) False XLOC_000424
TCONS_00000717 other upstream 93308 35790892 ~ 35803084 (+) True XLOC_000419
TCONS_00000714 other upstream 381119 35494904 ~ 35515273 (+) False XLOC_000418
TCONS_00000704 other upstream 1189922 34695514 ~ 34706470 (+) False XLOC_000411
TCONS_00000699 other upstream 1207750 34685445 ~ 34688642 (+) False XLOC_000410
TCONS_00000695 other upstream 1496038 34400240 ~ 34400354 (+) True XLOC_000407
TCONS_00000728 other downstream 255824 36154261 ~ 36154377 (+) True XLOC_000425
TCONS_00000735 other downstream 767106 36665543 ~ 36690899 (+) False XLOC_000428
TCONS_00000740 other downstream 829860 36728297 ~ 36746569 (+) True XLOC_000429
TCONS_00000744 other downstream 1225205 37123642 ~ 37123772 (+) True XLOC_000432
TCONS_00000769 other downstream 2098022 37996459 ~ 37996577 (+) True XLOC_000440

Expression Profile

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