RNA id: TCONS_00006201


Basic Information

Item Value
RNA id TCONS_00006201
length 1128
lncRNA type sense_over
GC content 0.41
exon number 2
gene id XLOC_003139
representative False

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 2198530 ~ 2205798 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GGGAAGAGAGGCCtaggaaaaaaaaagtgttgttttttaaAGAAGAAGGGATGAATTCCTATTTTACGAACCCATCGCTGTCGTGTCATTTAAACAGCGGTCAAGAAGTTCTACCCAGCGTTGCCATCAGCTCGACAAACTATGACCCGGTGCGACATTTTTCGCCATATGGCGCCGCCGTTGCCCAAAACCGGATATACTCCAATCCGTTCTATTCACACCAAGAAAACGTTATGTTTGGGTCAAGCCGACCGTACGATTACGGATCAAATATGTTCTACCAGGACAAAGATGTGCTTCCAAGTTGCAGGCAAGGCTTTGGGCAAACACAGGGTTCATTGACGCAGGATTACGCTTCAGACCAAGGCAAGACTATGGAACCGAAAGGAAGTGTTCAAATATATCCATGGATGCAGCGGATGAACTCGCATAGTGGAGTTGGCTATGGGTCTGACAGACGGCGAGGTCGCCAAATCTATTCGCGATACCAAACTTTAGAACTTGAGAAAGAATTTCATTACAATCGCTATTTGACAAGACGCAGACGAATTGAGATTGCCAACACATTGTGTCTGTCGGAACGCCAGATTAAAATTTGGTTTCAGAACCGCCGGATGAAATGGAAGAAGGAGAGCAATCTCACGTCCATCCTCAATGACAATGGCTCGGTAGGAGCTGGCCAAGACACGGACAAAGAAGAAACAGGGGAAACCGCCGAAAAAGATGAGCATGACTGATTGACTTACTAACTAATTAAAAGACATTCCGTTTGAAAACGTTCTTACATAACTAAGCTACCTATGGAATTTACACAATTTGCACAATTAAAACCAAAAACTGTTACAATTCCTTTAGATGCAAAGCGTGTGTTGCTTCGCCACTTATTTCACTATGATTCTGAAAAGCTGTTTATCCAGAGCAATTTAATTCATAAATCAGTGCTCTGACTGAAAATGTTTTACCTATCTTGTGTGATTTAATCTTGTCATTAAACATCTTATTTGTTCTGATGTACTCTGAAGTGCAAATAAGGGACTGTTGATGTAGACCAAATATGAAAATTCCAAATATTAAACTACAATCATTTCTTCTGGTCCTAGGAAGTGCATTGTACATGTTTGTAAATAT

Function

GO:

id name namespace
GO:0048729 tissue morphogenesis biological_process
GO:0042692 muscle cell differentiation biological_process
GO:0048731 system development biological_process
GO:0048732 gland 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:0048468 cell development biological_process
GO:0035239 tube morphogenesis biological_process
GO:0048747 muscle fiber development biological_process
GO:0021546 rhombomere development biological_process
GO:0051146 striated muscle cell differentiation 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: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: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:0030154 cell differentiation biological_process
GO:0048513 animal organ development biological_process
GO:1990399 epithelium regeneration biological_process
GO:0055001 muscle cell development biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0071599 otic vesicle development biological_process
GO:0021593 rhombomere morphogenesis biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0009611 response to wounding biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0007275 multicellular organism development biological_process
GO:0009888 tissue 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: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: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:0048589 developmental growth biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:0048596 embryonic camera-type eye morphogenesis biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0031076 embryonic camera-type eye development biological_process
GO:0010468 regulation of gene expression biological_process
GO:0048869 cellular developmental process biological_process
GO:0042246 tissue regeneration biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0031099 regeneration biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0040007 growth biological_process
GO:0070654 sensory epithelium regeneration biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0048048 embryonic eye morphogenesis biological_process
GO:0050794 regulation of cellular process biological_process
GO:0007399 nervous system development biological_process
GO:0061061 muscle structure 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:0060537 muscle tissue development 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:0014706 striated muscle tissue development 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:0060562 epithelial tube morphogenesis biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0007166 cell surface receptor signaling pathway biological_process
GO:0060322 head development biological_process
GO:0042060 wound healing biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching 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: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: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_00008512 lncRNA upstream 2094 2198530 ~ 2200893 (+) False XLOC_003139
TCONS_00008510 lncRNA upstream 205577 1935690 ~ 1997410 (+) False XLOC_003132
TCONS_00006193 lncRNA upstream 246834 1935893 ~ 1956153 (+) True XLOC_003132
TCONS_00008378 lncRNA upstream 250393 1951631 ~ 1952594 (+) True XLOC_003133
TCONS_00008377 lncRNA upstream 254881 1935851 ~ 1948106 (+) False XLOC_003132
TCONS_00008513 lncRNA downstream 103665 2308209 ~ 2313145 (+) False XLOC_003140
TCONS_00008515 lncRNA downstream 103665 2308209 ~ 2320355 (+) False XLOC_003140
TCONS_00008514 lncRNA downstream 103665 2308209 ~ 2320355 (+) False XLOC_003140
TCONS_00008380 lncRNA downstream 103674 2308218 ~ 2314786 (+) True XLOC_003140
TCONS_00006213 lncRNA downstream 410526 2615070 ~ 2616023 (+) True XLOC_003149
TCONS_00006198 mRNA upstream 17813 2180072 ~ 2185174 (+) False XLOC_003137
TCONS_00006197 mRNA upstream 17813 2180072 ~ 2185174 (+) True XLOC_003137
TCONS_00006196 mRNA upstream 27954 2172335 ~ 2175033 (+) True XLOC_003136
TCONS_00006195 mRNA upstream 40166 2156430 ~ 2162821 (+) True XLOC_003135
TCONS_00006194 mRNA upstream 106518 2089461 ~ 2096469 (+) True XLOC_003134
TCONS_00006203 mRNA downstream 186925 2391469 ~ 2397974 (+) True XLOC_003141
TCONS_00006204 mRNA downstream 194299 2398843 ~ 2413107 (+) True XLOC_003142
TCONS_00006205 mRNA downstream 211520 2416064 ~ 2429303 (+) True XLOC_003143
TCONS_00006206 mRNA downstream 229718 2434262 ~ 2446346 (+) True XLOC_003144
TCONS_00006207 mRNA downstream 253720 2458264 ~ 2466879 (+) True XLOC_003145
TCONS_00006199 other upstream 12257 2190621 ~ 2190730 (+) True XLOC_003138
TCONS_00006172 other upstream 656756 1546117 ~ 1546231 (+) True XLOC_003126
TCONS_00006169 other upstream 673660 1522179 ~ 1529327 (+) False XLOC_003124
TCONS_00006161 other upstream 1472064 730807 ~ 730923 (+) True XLOC_003118
TCONS_00006147 other upstream 1831547 371322 ~ 371440 (+) True XLOC_003107
TCONS_00006215 other downstream 429247 2633791 ~ 2649394 (+) False XLOC_003150
TCONS_00006226 other downstream 540520 2745064 ~ 2747797 (+) True XLOC_003154
TCONS_00006233 other downstream 972142 3176686 ~ 3176770 (+) True XLOC_003159
TCONS_00006246 other downstream 1294646 3499190 ~ 3514108 (+) False XLOC_003165
TCONS_00006254 other downstream 1761183 3965727 ~ 3968309 (+) True XLOC_003171

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000057_01165517_01166589.mRNA True 1703 mRNA 0.40 2 CI01000057 1165179 ~ 1167258 (+)