RNA id: TCONS_00042110


Basic Information

Item Value
RNA id TCONS_00042110
length 2881
lncRNA type inter_gene
GC content 0.38
exon number 4
gene id XLOC_020344
representative False

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 18243758 ~ 18304288 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ACGAAACAGCCAGTGTGGAAACATCTCTCCATACGACAACTTGTGGAAAATGAGACTGTGGGAGAAATCAGTGATAAAACACAACCCAAATGACCACAGATTAGGAGTCGGAAGACGAGCAGAGAGTGGGAGTAGCGATAGTGGTGGAGGAGTGAACCCGGAGCAGGTGAACACAGCTGCGGACCGCCATGGGCTCTCTTCCATCGGTCCCGACTCTCCGTCTTCAGGTCTCTGAGAGACGGCAGGGGCCAGCCAGGGAGCGTCGGAGTGGGCAGGAGAGGCAGCTCGCTTTCCCCGCCGGCTACCGACTCCTCAGCAGCGAGGAGGGAGAGAAATCAATACTGAGGAGAGATGCTGCCAGGGGTCGCCCAACGCTGCCTCCAGCCATGGAGCCATGGGAGCTCGTGTGTtcagctttctctctctcagccCATTCTCAGTCAACTAGCATCAGCTAAAGAGAGGGCCAACAGCCTTGACGCTCTTCATGCAACGccgagtgtgtgtgtatgcgtgtgtggtTCTGCCAGAGGGCCTTTCCAGGCTCAGCATCACTTGATAAAACTTTGCCTGCTGGAGAATGAGTAGAAAAAGAATGTCAAAGGTCTTTTTTTCCCCCGTCTTTGATTCCTTTTTCGCCATGAGTGCACATTCCCCCTGACTGTTGTAATGAGTGCTTGACGGAGATCTCTTTTACGCTAAATCAAGAGGCCTTCTTTTTTTAGTGGTCCTCCTCCTAAGCATGCACAAAGTGCTCTACACCTGATGGGCCAGGATGAGAGAGCAGTATGAATCCTTTTTCACCTTTTCCACAATGGTTTTtacatgattttctttttttttttttgatggcagTCACTATTCGAGTGGCCTGGAGAAGGACTTGGCTTTGATTTGTAGGTGAAGGGCTTGGCACTTACTCTCCCTGGGCACTTCGCAACGGCTTTCACCCTTGACCGTGGCACTTGATGGGTATTAATAATGTTGCGGACCAATGGAGGACACAGTGAGATGGAGCTTGTGCACAAGTTCTACAAAAGTTGCTCCTGCATGACCAGAGATCCAATTGGATGTGGACAACTGAAAATGCAACTTTAACAAGATGCTAACATTTTTATAACTGGATAGTTCCAGTATTCTTGGATGCCCAACGAGAACCAGTTAAATTTGGTGTTGTGACACATAAGAAAAACAGAAGAAATCTCAAGACAACAAGCGGATCAAGAGGAGATGTTTTTCctttcttctatttttttttttttttgtcactctacgtaaaaaaacactgtagttgttgtttttgttggatCTGTCTTCAAGTAAGTAATTGTGACCAACAACGGTAAGTTTTTTAAATCTACAGTACTACAAAGTATATTATAGATATTAGAGCTTGATAGTGCAGATCTTTAAGTAGATGTCTGGATAGATGCTGTATTCATGATAGGCACATATTAGGATTTAAATTTATGATAAAAACATTTCTCAATAGATTTTCAGATAAATGTTACTGCATAAAGATGTTTTTGCACGGTTTAAGGCAAAGTTGTTATCCCtacttttttattaactttaaaacttctcaagtgatgtttaaaagagcaaggaaattttcccagTACTTCCTgttgtatatttttttcagtgtaaatcttttagtttggctgaaataaatacaggttttacattttaaaaaagattttaatcaGGGTCAATATTAGAAACGTAATGGCTACATAATGGTtgggctacagaacaaaccaatgttgtCCAATGAGCTGTAACAACAGAGCTCTTGaggttttttgggggacaacttaattgatttacgctcaatccacttcaatttgtaataacaagttaacttaatcaatttatgttgggactacttgaaggaattgtgtggaacccagccttttttagcgtagttaacctaattattacCATagataagtctttaaattgcactttaagcggAATAATAtcctgcaaaataactagtaaaatattatgtattgtcttcatggcaaaaacaaaagcaatttgttttttaaataactgagttattaaaaatcagttatttaaactatcatgcttaaaaatgtgttaatatcATCTTCTATTCGTTAAACAtctcttgggaaatatttgaaaaagatttcAAATGTCCTAATTAATTTTGCCTTTTACTGCATATATTCAGGTAGATATTTGGGTGAATATTCAGGTAGGTATGTGGATATTTGGATAGATATTCAGATAAAGCAGTAGATATTTGAGAATAGAAGTAGACAGATGTTCTTCTGGCAGAGAGTTATATATTCATATTCCAGTGGAAAGTTATTCAGGTAAAAAtgtctgtgtttttttaaactgttcAATTGAACTGCACGATTGCCTTGTATTaaagatgaaaaataaatactgaaataaatctTTCTTTGTAATCTGTGTTTTCTTTCCCCTCTTGGGTCTTTTAGCACTTTTCAAGAAGTATTTTGATGCTCTgagtattttttttatgaactagAGCacgggtgcccaaacctttttgtataaagggccaaacaaacaaacaaacaatcacatttataacacagtgaagtgctgaatctgcctttgacttgatttgctcaacCAAAGTCTCAAAAGTTATAACTcaatgtcaaaagttataagataATTATCCCAGAATAAATAGTGGCTAGCTAGGTCTGTAATTCTGATTTTGCTCGGTTGATATGAAGCTATGTGTGATATTTAATAGGATAACCTGATTACTGCACAATTCTGACatgaaacttaaaataatttgtgTGCAAATTTACAAATTTTCAAaattcattttgacatttttctttCCACAAGAAAACCAAGCGAG

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:0048468 cell development 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:0046031 ADP metabolic process 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:0030154 cell differentiation biological_process
GO:0006942 regulation of striated muscle contraction biological_process
GO:1990399 epithelium regeneration biological_process
GO:0006090 pyruvate metabolic process biological_process
GO:0006096 glycolytic process biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0030182 neuron differentiation 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:0051239 regulation of multicellular organismal process 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:0006165 nucleoside diphosphate phosphorylation 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:0048869 cellular developmental process biological_process
GO:0019359 nicotinamide nucleotide biosynthetic process biological_process
GO:0045595 regulation of cell differentiation biological_process
GO:0019363 pyridine nucleotide biosynthetic process biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0043696 dedifferentiation biological_process
GO:0009135 purine nucleoside diphosphate metabolic process biological_process
GO:0043697 cell dedifferentiation biological_process
GO:0006757 ATP generation from ADP biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0061549 sympathetic ganglion development biological_process
GO:0042866 pyruvate biosynthetic process biological_process
GO:0050767 regulation of neurogenesis biological_process
GO:0070654 sensory epithelium regeneration biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0009179 purine ribonucleoside diphosphate metabolic process biological_process
GO:0009185 ribonucleoside diphosphate metabolic process biological_process
GO:0007399 nervous system development 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:0060284 regulation of cell development 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:0060290 transdifferentiation biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0022008 neurogenesis biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0048699 generation of neurons biological_process
GO:0003310 pancreatic A cell differentiation biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0021515 cell differentiation in spinal cord biological_process
GO:0016052 carbohydrate catabolic process biological_process
GO:0021517 ventral spinal cord development biological_process
GO:0051960 regulation of nervous system development biological_process
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: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

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_00040376 lncRNA upstream 440565 17784642 ~ 17803402 (+) True XLOC_020338
TCONS_00040373 lncRNA upstream 632385 17607753 ~ 17611582 (+) True XLOC_020337
TCONS_00040370 lncRNA upstream 702910 17539163 ~ 17541057 (+) True XLOC_020336
TCONS_00040366 lncRNA upstream 709960 17531024 ~ 17534007 (+) False XLOC_020336
TCONS_00040363 lncRNA upstream 737929 17503508 ~ 17506038 (+) True XLOC_020334
TCONS_00042127 lncRNA downstream 256055 18560343 ~ 18569388 (+) False XLOC_020351
TCONS_00042128 lncRNA downstream 256055 18560343 ~ 18596258 (+) False XLOC_020351
TCONS_00042129 lncRNA downstream 261283 18565571 ~ 18569388 (+) True XLOC_020351
TCONS_00041895 lncRNA downstream 1534987 19839275 ~ 19839592 (+) True XLOC_020382
TCONS_00042130 lncRNA downstream 1707508 20011796 ~ 20050276 (+) True XLOC_020383
TCONS_00040383 mRNA upstream 27479 18187857 ~ 18216488 (+) False XLOC_020343
TCONS_00040384 mRNA upstream 37618 18188045 ~ 18206349 (+) True XLOC_020343
TCONS_00040382 mRNA upstream 68802 18166660 ~ 18175165 (+) True XLOC_020342
TCONS_00040380 mRNA upstream 83698 18156087 ~ 18160269 (+) True XLOC_020341
TCONS_00040379 mRNA upstream 83733 18156000 ~ 18160234 (+) False XLOC_020341
TCONS_00040388 mRNA downstream 11202 18315490 ~ 18387919 (+) False XLOC_020346
TCONS_00040389 mRNA downstream 11856 18316144 ~ 18371115 (+) False XLOC_020346
TCONS_00040391 mRNA downstream 14942 18319230 ~ 18387919 (+) False XLOC_020346
TCONS_00040390 mRNA downstream 14942 18319230 ~ 18387919 (+) False XLOC_020346
TCONS_00040392 mRNA downstream 15378 18319666 ~ 18383156 (+) False XLOC_020346
TCONS_00040381 other upstream 68589 18166599 ~ 18175378 (+) False XLOC_020342
TCONS_00040377 other upstream 419394 17824459 ~ 17824573 (+) True XLOC_020339
TCONS_00040371 other upstream 636630 17606588 ~ 17607337 (+) False XLOC_020337
TCONS_00040360 other upstream 793701 17443345 ~ 17450266 (+) True XLOC_020332
TCONS_00040335 other upstream 1604542 16639310 ~ 16639425 (+) True XLOC_020322
TCONS_00040420 other downstream 932743 19237031 ~ 19238226 (+) True XLOC_020360
TCONS_00040469 other downstream 1467410 19771698 ~ 19771812 (+) True XLOC_020380
TCONS_00040470 other downstream 1488831 19793119 ~ 19793233 (+) True XLOC_020381
TCONS_00040472 other downstream 1835237 20139525 ~ 20139592 (+) True XLOC_020385
TCONS_00040475 other downstream 1847637 20151925 ~ 20151981 (+) True XLOC_020387

Expression Profile

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