RNA id: TCONS_00047160


Basic Information

Item Value
RNA id TCONS_00047160
length 462
lncRNA type inter_gene
GC content 0.26
exon number 1
gene id XLOC_023335
representative True

Chromosome Information

Item Value
chromosome id NC_007135.7
NCBI id CM002908.2
chromosome length 42172926
location 11874337 ~ 11875212 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTCACAAGTTCTCAGGTTGTTGAAAAACGAACAAAAGGAATTCAGCCAACTACTATAACGGTACACATCACTTACATTTTGCATTACAATGACATGTTTTTATTGATTAAtatatttcatgtaattttatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatacatacacacaaatttTTTATGTTTCTGATTTGTATGTAACCTTGtcatttgatttgtttaaataGGTTTTGAAATCATGGCCTGTGCACATCAACATCTGTGGACCCTGCAGAACATGCATGCAACCTGTGCCTTGCTGTTTTCCTTAGAGGGTCTTACCCATTGTCTTAACTAAATATTGTAACACTGTCATTtctgttttttctgtttatgACATGTTGTTGTACATTAAACTATCATTATATCATAAA

Function

GO:

id name namespace
GO:0001704 formation of primary germ layer biological_process
GO:0048729 tissue morphogenesis biological_process
GO:0010604 positive regulation of macromolecule metabolic process biological_process
GO:0001706 endoderm formation 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:0035239 tube morphogenesis biological_process
GO:0010628 positive regulation of gene expression biological_process
GO:0007492 endoderm development biological_process
GO:0048762 mesenchymal 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: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:0001756 somitogenesis biological_process
GO:0043009 chordate embryonic development biological_process
GO:0021571 rhombomere 5 development biological_process
GO:0021572 rhombomere 6 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:0035282 segmentation biological_process
GO:0048518 positive regulation of biological process biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0071599 otic vesicle development biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0009880 embryonic pattern specification biological_process
GO:0043049 otic placode formation 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:0009891 positive 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:0031325 positive regulation of cellular metabolic process biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0031328 positive 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:1902680 positive regulation of RNA biosynthetic process biological_process
GO:0030510 regulation of BMP signaling pathway biological_process
GO:0090092 regulation of transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:1903224 regulation of endodermal cell differentiation 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:0051254 positive regulation of RNA metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:0048863 stem cell differentiation biological_process
GO:0048864 stem cell development biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:1903508 positive regulation of nucleic acid-templated transcription 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:0009952 anterior/posterior pattern specification biological_process
GO:0060485 mesenchyme development biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0071696 ectodermal placode development biological_process
GO:0071697 ectodermal placode morphogenesis biological_process
GO:0014031 mesenchymal cell development biological_process
GO:0014032 neural crest cell development biological_process
GO:0014033 neural crest cell differentiation biological_process
GO:0007369 gastrulation biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0030855 epithelial cell differentiation biological_process
GO:0003002 regionalization biological_process
GO:0035148 tube formation biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0061053 somite development biological_process
GO:0060788 ectodermal placode formation 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:0045935 positive regulation of nucleobase-containing compound metabolic 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:0010557 positive regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0007420 brain development biological_process
GO:0048389 intermediate mesoderm development 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:0060562 epithelial tube morphogenesis biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0030916 otic vesicle formation 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: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_00046143 lncRNA downstream 823010 11048860 ~ 11051340 (-) True XLOC_023322
TCONS_00046847 lncRNA downstream 1374448 10497369 ~ 10499902 (-) True XLOC_023320
TCONS_00047159 lncRNA downstream 1598692 10269856 ~ 10275658 (-) True XLOC_023318
TCONS_00046846 lncRNA downstream 1877872 9995132 ~ 9996478 (-) True XLOC_023313
TCONS_00047158 lncRNA downstream 1890551 9982279 ~ 9983799 (-) False XLOC_023312
TCONS_00046160 lncRNA upstream 253694 12128505 ~ 12129456 (-) True XLOC_023337
TCONS_00047161 lncRNA upstream 721727 12596538 ~ 12601729 (-) True XLOC_023339
TCONS_00047162 lncRNA upstream 867125 12741936 ~ 12744908 (-) False XLOC_023341
TCONS_00047163 lncRNA upstream 867125 12741936 ~ 12746499 (-) False XLOC_023341
TCONS_00046163 lncRNA upstream 867125 12741936 ~ 12746499 (-) True XLOC_023341
TCONS_00046157 mRNA downstream 52845 11528270 ~ 11821505 (-) True XLOC_023334
TCONS_00046155 mRNA downstream 368286 11469811 ~ 11506064 (-) False XLOC_023333
TCONS_00046156 mRNA downstream 368296 11473563 ~ 11506054 (-) True XLOC_023333
TCONS_00046153 mRNA downstream 406801 11451077 ~ 11467549 (-) False XLOC_023332
TCONS_00046158 mRNA upstream 13074 11887885 ~ 11905911 (-) False XLOC_023336
TCONS_00046159 mRNA upstream 15133 11889944 ~ 11908115 (-) True XLOC_023336
TCONS_00046162 mRNA upstream 754838 12629649 ~ 12689571 (-) True XLOC_023340
TCONS_00046164 mRNA upstream 872566 12747377 ~ 12749116 (-) True XLOC_023342
TCONS_00046165 mRNA upstream 879202 12754013 ~ 12770357 (-) False XLOC_023343
TCONS_00046151 other downstream 462409 11411822 ~ 11411941 (-) True XLOC_023331
TCONS_00046142 other downstream 825790 11048446 ~ 11048560 (-) True XLOC_023326
TCONS_00046141 other downstream 862799 11011436 ~ 11011551 (-) True XLOC_023325
TCONS_00046140 other downstream 926205 10948064 ~ 10948145 (-) True XLOC_023324
TCONS_00046137 other downstream 969064 10905172 ~ 10905286 (-) True XLOC_023323
TCONS_00046161 other upstream 280296 12155107 ~ 12156644 (-) True XLOC_023338
TCONS_00046184 other upstream 1734787 13609598 ~ 13609714 (-) True XLOC_023354
TCONS_00046187 other upstream 2659031 14533842 ~ 14536411 (-) True XLOC_023357
TCONS_00046200 other upstream 3339060 15213871 ~ 15213985 (-) True XLOC_023362
TCONS_00046203 other upstream 4199278 16074089 ~ 16075115 (-) True XLOC_023365

Expression Profile

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