RNA id: TCONS_00003457


Basic Information

Item Value
RNA id TCONS_00003457
length 491
lncRNA type inter_gene
GC content 0.35
exon number 2
gene id XLOC_001404
representative True

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 41532664 ~ 41533488 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TCTAGTAAGACGCGGAACAATATGACAAAATTCTGATATTAATTATAATTCTCAATACATAAGACTGAATACAGGGAATGACgtatgatataatataaactaaaataCAGGCATTCGTATGCAACTCTCAGTACTACAGAAAAAGTAATCCAGTTAGAGGTACCACAGTTTACAAAATACACCCACTTTTACAAAGATTTCACACAACTTGCACAAACTCTGAAACATTGCTTAACCAAATAAAACCATCCCCAGCATTTCCTTAATCTTCCTTCTCTCCAGCACCAGTCCTCTGCACCTCCCATTCCTTACTTTCTACTGCCTTTCAAAGCTTCTTCATTCTTTCCAAATCTTTCACCATTCACCAAATCTCATCTTAGTTGTGTTACATCATGCTCAAGTACTTCATATTAAGATTAAAAATCAGATCTGCTCTGCTCGTACCTCATTTACAGTTATCCGTACTAACTGGTcacattgttttttatatt

Function

GO:

id name namespace
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:0048468 cell development biological_process
GO:0010628 positive regulation of gene expression 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: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:0048513 animal organ development biological_process
GO:1990399 epithelium regeneration biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0019827 stem cell population maintenance 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:0007275 multicellular organism development biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0002065 columnar/cuboidal epithelial cell differentiation biological_process
GO:0009891 positive 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:0031328 positive regulation of cellular biosynthetic process biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:1902680 positive regulation of RNA biosynthetic process biological_process
GO:0010720 positive regulation of cell development biological_process
GO:0097150 neuronal stem cell population maintenance biological_process
GO:0051239 regulation of multicellular organismal process 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:1901362 organic cyclic compound biosynthetic process biological_process
GO:1903508 positive regulation of nucleic acid-templated transcription biological_process
GO:0010467 gene expression biological_process
GO:0010468 regulation of gene expression biological_process
GO:0048869 cellular developmental process biological_process
GO:0045595 regulation of cell differentiation biological_process
GO:2000026 regulation of multicellular organismal development biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0043696 dedifferentiation biological_process
GO:0043697 cell dedifferentiation biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0050767 regulation of neurogenesis 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:0061564 axon development biological_process
GO:0048666 neuron development biological_process
GO:0050793 regulation of developmental process biological_process
GO:0007399 nervous system development biological_process
GO:0048934 peripheral nervous system neuron differentiation biological_process
GO:0048935 peripheral nervous system neuron development biological_process
GO:0032501 multicellular organismal process biological_process
GO:0048936 peripheral nervous system neuron axonogenesis 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:0060284 regulation of cell development biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II 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:0060290 transdifferentiation biological_process
GO:0007420 brain development biological_process
GO:0007422 peripheral nervous system development 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:0021510 spinal cord development biological_process
GO:0060322 head development biological_process
GO:0021514 ventral spinal cord interneuron differentiation biological_process
GO:0021515 cell differentiation in spinal cord biological_process
GO:0021517 ventral spinal cord development biological_process
GO:0051960 regulation of nervous system development biological_process
GO:0005901 caveola cellular_component
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0005488 binding molecular_function
GO:0005112 Notch 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:0046983 protein dimerization 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_00003456 lncRNA downstream 39183 41491301 ~ 41493481 (-) True XLOC_001403
TCONS_00003455 lncRNA downstream 272386 41223078 ~ 41260278 (-) False XLOC_001400
TCONS_00002969 lncRNA downstream 867959 40649944 ~ 40664705 (-) True XLOC_001394
TCONS_00003454 lncRNA downstream 873649 40648878 ~ 40659015 (-) False XLOC_001394
TCONS_00003453 lncRNA downstream 884519 40647644 ~ 40648145 (-) True XLOC_001393
TCONS_00003458 lncRNA upstream 54667 41588155 ~ 41591134 (-) True XLOC_001405
TCONS_00002970 lncRNA upstream 65730 41599218 ~ 41608702 (-) True XLOC_001406
TCONS_00003459 lncRNA upstream 223568 41757056 ~ 41761162 (-) True XLOC_001408
TCONS_00002312 lncRNA upstream 259813 41793301 ~ 41817781 (-) True XLOC_001409
TCONS_00003460 lncRNA upstream 341449 41874937 ~ 41876777 (-) True XLOC_001410
TCONS_00002307 mRNA downstream 158547 41293964 ~ 41374117 (-) True XLOC_001401
TCONS_00002302 mRNA downstream 244750 41201586 ~ 41287914 (-) False XLOC_001400
TCONS_00002304 mRNA downstream 244750 41214653 ~ 41287914 (-) False XLOC_001400
TCONS_00002303 mRNA downstream 244750 41214653 ~ 41287914 (-) False XLOC_001400
TCONS_00002301 mRNA downstream 340605 41155671 ~ 41192059 (-) True XLOC_001399
TCONS_00002310 mRNA upstream 237354 41770842 ~ 41817784 (-) False XLOC_001409
TCONS_00002311 mRNA upstream 249877 41783365 ~ 41817742 (-) False XLOC_001409
TCONS_00002313 mRNA upstream 423722 41957210 ~ 41982582 (-) True XLOC_001411
TCONS_00002315 mRNA upstream 747820 42281308 ~ 42289704 (-) False XLOC_001413
TCONS_00002317 mRNA upstream 1243065 42776553 ~ 42779075 (-) False XLOC_001414
TCONS_00002308 other downstream 220772 41311777 ~ 41311892 (-) True XLOC_001402
TCONS_00002306 other downstream 272386 41230815 ~ 41260278 (-) True XLOC_001400
TCONS_00002305 other downstream 293080 41223078 ~ 41239584 (-) False XLOC_001400
TCONS_00002278 other downstream 1546504 39985905 ~ 39986160 (-) True XLOC_001380
TCONS_00002277 other downstream 1549611 39982172 ~ 39983053 (-) True XLOC_001379
TCONS_00002309 other upstream 67547 41601035 ~ 41601152 (-) True XLOC_001407
TCONS_00002314 other upstream 744035 42277523 ~ 42277650 (-) True XLOC_001412
TCONS_00002319 other upstream 1441272 42974760 ~ 42974875 (-) True XLOC_001415
TCONS_00002327 other upstream 2186461 43719949 ~ 43725218 (-) False XLOC_001419
TCONS_00002392 other upstream 3782721 45316209 ~ 45317628 (-) True XLOC_001459

Expression Profile

//