RNA id: TCONS_00003474


Basic Information

Item Value
RNA id TCONS_00003474
length 618
lncRNA type inter_gene
GC content 0.43
exon number 3
gene id XLOC_001482
representative False

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 46792730 ~ 46833131 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

tttttattcatttgtttatctaTCATTAATCAGAAATATAACTTTTAATGTGTTACTTAGGCTATATTTCATGGGGACTAGCTGTCACTCACATCATCCACCAATAGCGAATGACACAATCCAACCTTGCTGATGATCATGCAGGCCCTTGCTACTTTTTTTCCTGAGTTCGTAGCTCGGGTATTCGTTACAATCCTATTCTGAGGTTAAAACAGTTCAAACAGGTCAATTAAAACCAACAAacgtttagttttattttaccgtatactaagtttttttttaaatccaataaCGTTAACTGTTGGGTGGTTTTCTTCAAAGTTAGCCAAAGATCTTCACGTGGCTTTGCATCCTCACCATCCACATCCACAAGACTGATTGAACCCGGCAACCCCAGGCTCGAGGAGGTCTGGCTTAAAACACTGTGGGCTCCTGACAGGCCAATGGATCTGCAGACAGAAGTCTAGCGGGATGGATGGCTGGGCTATTATGTCACTTCCTGGGACATGTCGAGAGCAGACCCAGACAGACATCAGATGGAAACTGCTACCTGCTGGATCCGTCCAGAAGAGGAACTAACTGTGAAGTCTGTGAAGACGTGACTCATCTCCAATCTGC

Function

GO:

id name namespace
GO:0007178 transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:0001704 formation of primary germ layer biological_process
GO:0048729 tissue morphogenesis biological_process
GO:0001706 endoderm formation biological_process
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0001711 endodermal cell fate commitment biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0001714 endodermal cell fate specification biological_process
GO:0016070 RNA metabolic process 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: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:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0048785 hatching gland development biological_process
GO:0048513 animal organ development biological_process
GO:0035282 segmentation biological_process
GO:0090304 nucleic acid metabolic 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: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:0035050 embryonic heart tube 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:1903224 regulation of endodermal cell differentiation biological_process
GO:0051252 regulation of RNA 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:0010468 regulation of gene expression 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:0048332 mesoderm morphogenesis biological_process
GO:0007369 gastrulation 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:0003002 regionalization biological_process
GO:0003007 heart morphogenesis biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0061053 somite development biological_process
GO:0050794 regulation of cellular process biological_process
GO:0061312 BMP signaling pathway involved in heart development biological_process
GO:1901166 neural crest cell migration involved in autonomic nervous system development biological_process
GO:1903045 neural crest cell migration involved in sympathetic 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: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:0021999 neural plate anterior/posterior regionalization biological_process
GO:0003303 BMP signaling pathway involved in heart jogging biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0042659 regulation of cell fate specification biological_process
GO:0072045 convergent extension involved in nephron morphogenesis biological_process
GO:0042663 regulation of endodermal cell fate specification 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:0043565 sequence-specific DNA 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_00003473 lncRNA downstream 1175 46750544 ~ 46791555 (-) True XLOC_001481
TCONS_00003472 lncRNA downstream 35187 46750544 ~ 46757543 (-) False XLOC_001481
TCONS_00002973 lncRNA downstream 54132 46725808 ~ 46738598 (-) False XLOC_001480
TCONS_00003471 lncRNA downstream 54173 46721846 ~ 46738557 (-) False XLOC_001480
TCONS_00002433 lncRNA downstream 74417 46715206 ~ 46718313 (-) True XLOC_001479
TCONS_00003475 lncRNA upstream 108811 46937382 ~ 46952111 (-) True XLOC_001485
TCONS_00002457 lncRNA upstream 291760 47120331 ~ 47122129 (-) True XLOC_001491
TCONS_00002974 lncRNA upstream 296086 47124657 ~ 47161973 (-) False XLOC_001492
TCONS_00002458 lncRNA upstream 297039 47125610 ~ 47135341 (-) False XLOC_001492
TCONS_00002975 lncRNA upstream 297077 47125648 ~ 47135203 (-) False XLOC_001492
TCONS_00002432 mRNA downstream 74377 46710647 ~ 46718353 (-) False XLOC_001479
TCONS_00002431 mRNA downstream 86091 46666696 ~ 46706639 (-) True XLOC_001478
TCONS_00002430 mRNA downstream 128733 46660213 ~ 46663997 (-) True XLOC_001477
TCONS_00002429 mRNA downstream 142708 46642522 ~ 46650022 (-) True XLOC_001476
TCONS_00002428 mRNA downstream 144543 46636263 ~ 46648187 (-) False XLOC_001476
TCONS_00002438 mRNA upstream 9278 46837849 ~ 46875493 (-) False XLOC_001483
TCONS_00002439 mRNA upstream 19973 46848544 ~ 46862190 (-) False XLOC_001483
TCONS_00002440 mRNA upstream 25506 46854077 ~ 46859398 (-) True XLOC_001483
TCONS_00002441 mRNA upstream 59462 46888033 ~ 46924801 (-) True XLOC_001484
TCONS_00002443 mRNA upstream 135422 46963993 ~ 46984142 (-) False XLOC_001487
TCONS_00002436 other downstream 49178 46725808 ~ 46743552 (-) True XLOC_001480
TCONS_00002435 other downstream 70025 46722622 ~ 46722705 (-) False XLOC_001480
TCONS_00002434 other downstream 70212 46722379 ~ 46722518 (-) False XLOC_001480
TCONS_00002426 other downstream 162026 46627489 ~ 46630704 (-) True XLOC_001475
TCONS_00002410 other downstream 1129979 45655075 ~ 45662751 (-) True XLOC_001465
TCONS_00002442 other upstream 116456 46945027 ~ 46945143 (-) True XLOC_001486
TCONS_00002449 other upstream 190440 47019011 ~ 47071948 (-) False XLOC_001489
TCONS_00002450 other upstream 237922 47066493 ~ 47089818 (-) True XLOC_001489
TCONS_00002452 other upstream 280541 47109112 ~ 47111776 (-) False XLOC_001490
TCONS_00002466 other upstream 877556 47706127 ~ 47706244 (-) True XLOC_001497

Expression Profile

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