RNA id: TCONS_00053130


Basic Information

Item Value
RNA id TCONS_00053130
length 3472
lncRNA type inter_gene
GC content 0.35
exon number 1
gene id XLOC_026778
representative True

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 51445490 ~ 51448961 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

gcatattgctgatttgattcagaaaggCACTGTTTTGTCAGATGGCTCACCGGTCAGGCATGAATCCTcgttaaaatatcaaggtgaaagtcatcatagcttgcgtggaatagacccagctcccaaaccaACTATGAGAATAGATTAATGTTTAGCctataacggcccaccactaatataagTATCAGTGCTTCCCATACATAGACTTCTCTTGGGTGGGCCACCCAGGTATGTTTATGGCCACCGAATTGGTAGTGACACATGAATAATACTATTGTTATCATGCTTTTAAACGTTTTTTTATCAGCACAAGAAAGTCAAACATTCGCGATCaattaaccagtggaaaatcttctctcgctcTGCACGTTTCCTACTGCTGGTTCTGTGTGTGCAAGAACCGTCAACACTCACACATCACGTGCTCTGCAAATCAACAGAGATGGGCTTTTTGTGCCAAAATGCGTCAGACCATagtttttcaatttaataaaatgtctGGGAAAGTCCTCACCCCAGGTGGGGAGGAAAgtctttaccccaggtggaggagtttaagtatctcagggttttgttcatgagtgagggaaggatggaatgtgagattgacaggtggattggtgcaacggcagcagtaatgtggtcgatgtacctgtctgttgtggtgaagaagtAACTCTGATTTTGACAAAATTTGAGTTTGCTCAGCCAACCATCACCTATCTTTCCCTATGTTTCCCTACAGAGGTTTGGTAGAAAGACTGGTAGGTaagtaggtcacgtgacatacatttcaaCACATAGGAGTTCAATTGTCTAGAGATACACTATGGAAGGGGGTGAGCGCCAACCCATGTATTTTTGGTTAAGTGGATAGTTAGTGTAGTTTAGGTAAGACGTCTTGGACGTTTAAGATTTACTTTTTCATAATATGTTTATTAGCCTAGATTAGCGGGGATTTGATATTAGTAAGACTGTTTGGTTTTGATTGTTTCTTTGCTTTAGCACCACCCATCGCCAGTCTTtctaattaattttttgttttggttgtgaattgtaaatattgtaaatagctTACTCACTGCTTCACTAATCACCACTTGTAAAATATCACTTTATttgcacagcaattcttgtatgtGGTCATTACTTTAAGTACAATTTTCTTTGAGTGTTTATTTGAACAAAATCCTCGGTCAAGTGTGCAACCCCACTCCCCTAGACTACCCAGGCATTGTAACAGAGCTTTTTTCGGGTTTTACAAAGTAGATTCTTGAAAACTAGATTCTTAGAAAAATaatatgcactgtcatcatggcaaagacaaaaggaATTAGTTATTCAAATGATtacatttacaaatgtgttgaaaaaagcacCTTGAGGTGTCAGAAGTAttttgtaaaaatgcagggttccacacagttgattcatgttgtcccaacacaaattgatcaagTTAATTTAAGTGGTTTGtgcataaatcaattaagttgtcccaataaaaaaataaataataaaaaatagtattgtgttgtttcaatacattttaaataagtagtttgaacaagcagaaatctgaatacatttataacttattgttatttatatttgaagCATGTATTAGTGTAATAACAAGCGTTATTATATAAgtatattaagtaaatatttatttgcctTCTCACATCTCACACACCGATTGTTGTCGATTAACATGAATAtgtataatttctaataacaaacAATTACAgcttgttatatgaatttgatataTGTTTGCTTGAAAAAAAGACTCATATTTAGGGTAAGCTttctataaattaaaataatattacttttatttaatgatgttttgtaaataaaagtagaaaagcTGACAGTTTTTcctccaccaaaaaaaaaaaaaaaaaaaaaacatggaatacTTGATTTTGCACATATTTTAACACAAttgattattataaattattttgctGGCACATGAGATTTATTTGGAATAAATACTACAAAGAAATGCAAAGTCACAACTATACATAATTAAAGTAGACATTACTGGTTCCAATTTATGAAAGAAAAAGTAAACCAAgaacaaaagataaaaataaaagcaacgaTCCTTTCTAAAAGACTAAAACTATTTTAGATTTTCAGAATATTTCTTCAAATTCATCAAAATCTATATGAGTGAGGCATAATCTGAACAAAAATGGAAAATATGTAGCTGCGGTCACAGCATTCCAGCAGAATCTCACAGATGAAACAGACCTTTTGTCACCACTGTAGGAATGCATGACACTCAGTTCACACAAAAGCCAAATCAAACTGAACATCTTTCTCTTGCTCAAATTGGTGTTATCAATTGGAACCTGCTTCAAAATCCTTGGTAAATCTTTCACCCTGAAGTAAAATTCCATATTGTGCGGATTCCTGCAGAAATGACTGAAACCATTATTGTTTCATCTGTAAAAATTTGCAGAACAAAACTGTAACCATGCCTTAATTCTCTATATCAGATATATAACATGTATGTTAACGGTCTCTGACTGAAACACATCCCaatattacacagtatttacaaatttaaggtgCTAGTTCATGAATAAGTTAACTATCACTCTATAGTTTAAACACCCAAAAAATGCACATGTCGCTTATAGAAGCTAGctatgttagcatgttgctaaactTAACACATGAAAAAAGACTCTTTTACAACAATATGTGTCAGTGCTGATTGAACAGCTACTTTGTATATATAAACAACAATTAGTATTTGACATTTCCCATTTTAGATGGTCATCTTTGGTCACAGTGTGTTTGTGAGATTTTCTGTGAAGTACGCAGTGCTGCCTGCTATTTTCGACAGCATTTGAATTGGCATTGGGTCATGTGGAGCTTATAAATGTTGCAGATCATTTGGGCTTGGAACACAGTAAACGTCTTTGTTTGTCTCTTAATTTGAGAAGAACACCACTGGATGAGAGATCTGGAAGAGATGGCACACAGCCCTctgaaaagcaaaagaaaaaacatagccAGTTGGTTCCCATCTTAGTTTCCCATCTATTCAATTGTGGAATTCAACTCTATATGCAGCTTACTTTACTACTGACGAATAAAATATTTGACATAAAATATGTTCATGGTCCGCAAGAGAAAATAATAAGCCAGTCTATAAAAATGACCCGTTTACATTGATTCTTTATACTGAATCAAGTGTAacacttgattaaaaaaaaaatattttccacaGCTGGgctatttttgttttgtgaagGGTTTTTACGAGTCCCTTGTTTGTCCTGTTGTTCTTTAGAGAAATCCTCCAGGTCAAACAAAAGCTTTGGTTTTTCAGCAATGCGGAGTATTATTTCAAGCCTTTTCAAATATGACAGTTTGATTTTGAGATCCATATTTTTACACCGTGGACGAGCGGGGGACTCTTGTGCAACTATTACAGAAGGCTAAAAAC

Function

GO:

id name namespace
GO:0007178 transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:0010604 positive regulation of macromolecule metabolic process biological_process
GO:0042074 cell migration involved in gastrulation 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:0048762 mesenchymal cell differentiation 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:0060896 neural plate pattern specification biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0060897 neural plate regionalization biological_process
GO:0043009 chordate embryonic development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0051173 positive regulation of nitrogen compound metabolic process biological_process
GO:0048785 hatching gland development biological_process
GO:0048513 animal organ development biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0048519 negative regulation of biological process biological_process
GO:0048523 negative regulation of cellular process biological_process
GO:0003154 BMP signaling pathway involved in determination of left/right symmetry biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0009893 positive regulation of metabolic process 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:0035050 embryonic heart tube development biological_process
GO:0031325 positive 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:0048568 embryonic organ development biological_process
GO:0030509 BMP signaling pathway biological_process
GO:0090092 regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 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:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0060485 mesenchyme development biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0009966 regulation of signal transduction biological_process
GO:0007369 gastrulation biological_process
GO:0071704 organic substance metabolic process biological_process
GO:1900094 regulation of transcription from RNA polymerase II promoter involved in determination of left/right symmetry 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:0061053 somite development biological_process
GO:0061311 cell surface receptor signaling pathway involved in heart development biological_process
GO:0050794 regulation of cellular process biological_process
GO:0061312 BMP signaling pathway involved in heart development 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: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:0003303 BMP signaling pathway involved in heart jogging biological_process
GO:0001667 ameboidal-type cell migration 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:0046483 heterocycle metabolic process biological_process
GO:0071772 response to BMP biological_process
GO:0071773 cellular response to BMP stimulus biological_process
GO:1901213 regulation of transcription from RNA polymerase II promoter involved in heart development biological_process
GO:0060322 head development biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0061371 determination of heart left/right asymmetry 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: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: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_00053129 lncRNA downstream 171767 51259831 ~ 51273723 (-) True XLOC_026777
TCONS_00052101 lncRNA downstream 696374 50728859 ~ 50749116 (-) True XLOC_026773
TCONS_00052100 lncRNA downstream 1002190 50442152 ~ 50443300 (-) True XLOC_026772
TCONS_00053128 lncRNA downstream 1007212 50433551 ~ 50438278 (-) True XLOC_026770
TCONS_00052501 lncRNA downstream 1011067 50433793 ~ 50434423 (-) True XLOC_026771
TCONS_00053131 lncRNA upstream 176642 51625603 ~ 51660056 (-) True XLOC_026780
TCONS_00053132 lncRNA upstream 443758 51892719 ~ 51897783 (-) True XLOC_026781
TCONS_00052112 lncRNA upstream 615040 52064001 ~ 52090004 (-) True XLOC_026784
TCONS_00052502 lncRNA upstream 745662 52194623 ~ 52195739 (-) False XLOC_026785
TCONS_00053133 lncRNA upstream 745693 52194654 ~ 52196824 (-) False XLOC_026785
TCONS_00052108 mRNA downstream 302548 51030667 ~ 51142942 (-) True XLOC_026776
TCONS_00052107 mRNA downstream 336204 51030667 ~ 51109286 (-) False XLOC_026776
TCONS_00052106 mRNA downstream 446913 50951205 ~ 50998577 (-) True XLOC_026775
TCONS_00052105 mRNA downstream 490883 50951203 ~ 50954607 (-) False XLOC_026775
TCONS_00052104 mRNA downstream 580411 50861513 ~ 50865079 (-) True XLOC_026774
TCONS_00052110 mRNA upstream 450617 51899578 ~ 51912019 (-) True XLOC_026782
TCONS_00052116 mRNA upstream 1158078 52607039 ~ 52614747 (-) True XLOC_026787
TCONS_00052117 mRNA upstream 1192776 52641737 ~ 52644737 (-) True XLOC_026788
TCONS_00052118 mRNA upstream 1198183 52647144 ~ 52661242 (-) True XLOC_026789
TCONS_00052119 mRNA upstream 1218738 52667699 ~ 52674118 (-) False XLOC_026790
TCONS_00052087 other downstream 1327528 50104071 ~ 50117962 (-) True XLOC_026764
TCONS_00052082 other downstream 1630203 49815197 ~ 49815287 (-) False XLOC_026760
TCONS_00052070 other downstream 2367611 49077762 ~ 49077879 (-) True XLOC_026748
TCONS_00052055 other downstream 4250256 47195137 ~ 47195234 (-) True XLOC_026732
TCONS_00052007 other downstream 7351264 44081623 ~ 44094226 (-) False XLOC_026707
TCONS_00052109 other upstream 99172 51548133 ~ 51548250 (-) True XLOC_026779
TCONS_00052111 other upstream 458525 51907486 ~ 51907562 (-) True XLOC_026783
TCONS_00052136 other upstream 2240349 53689310 ~ 53689428 (-) True XLOC_026804
TCONS_00052148 other upstream 3614306 55063267 ~ 55079244 (-) True XLOC_026816
TCONS_00052166 other upstream 4007392 55456353 ~ 55481157 (-) True XLOC_026827

Expression Profile

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