RNA id: TCONS_00003073


Basic Information

Item Value
RNA id TCONS_00003073
length 2840
lncRNA type inter_gene
GC content 0.34
exon number 4
gene id XLOC_000305
representative False

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 25550053 ~ 25553299 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

gttcattgcgatcccaaggttcactgcggttttccacaaggtaagtaaaaagtaaacaaataaagacgatttgttgataaagcatgtactgtaaactagcgacgttatccaattacatcaagttcatttattaaaaacatatttttctcaaatataacgttggtcatgcatagctcagaacaatatatacattttaagatgaggaacagtgttaccagattgttgttttccacaatagaattcgtgcaaaatctttatatgatatgcaatatgcaactctaataacacaaatgtattcgtaattgtttcaatattaaagaacatcaagtgtttccaaaggttaattgtaaaaacaattattttccatgcctttaaAGGAAAAAAGCCAGAAATTTTGCCCGTCTGagcacattttaaattaaatttaatttttattttaatctaccacacacacacatatgtatgtatatatatatatatatatatatacatacaggtgTAAATTATAAGGTGTTCACTGTtcagatatgaatattttttcttttctcttttcaggttctttagatttctttaaaaatccaattttgttttctaataagcaAAAAGTAAAGCCACTTTACCCATGTCTATATGTTAAATTGAACTTGtctttctctctatctctgtgttaacacatttgtatttgtttgattaattcttGTGTCTTTCAGCCTGTTTCTGCCTATCACCATGAGTGATTCCTTGATACTCATATTTATCATCAAGATCTCAATTATAAGCTCAAGTCTTGATGACAACTTGATGATCTGCAGGAAGCACCACCATGTATAGAGGGATAAGACCACTCTGGAATCAGTCAAGGGTTAGTGAAGTTTTTCATTCCATGTATACTAAATATCTACATTGTTTAGGCATATATGATTGTAtgagataaaatgcatttattcttttacttctattgtaataacagaaagaaacgcattagttttactattactattgtttatgaaaaacattataaACTACAGTATAAGCTCAAAAAATATTGTGGCctaactgtttaaaactatttgttctgggtgttgattagtggccaaccattttttttctttttcagaaagtattttgttttgtctgattttatgaCACCTTATAGGCCATCAACTGTCCACATTGGGGTTTAGGAAATTAAACTACTAATGCTGCTTGTCTACTAGTCTTAGGATAAGTTagaattgttataaatgttaatttctttgttgtttttatctggtaCAGCTCATAGGAACTCCAATCTTCCCAACTGTGAGAGGGCCTTGCTCCAGTGACTGTTGGTGTGTACTTTAATGTTTCCATTAGTCACTGTATCTGTAGATCTAGGTGACAGTGGGCTAGAgtcaaaatttgtttttatttaaactaaggcatactgatggccttttttatctcagatttggtcatgcaagtataaatatatcctaaaatatttttatattctttccattggtggaaaagagtttggtataattatttttaatagactGCCAAGTtctcagcagacatttttcttaGATATTCTTGAGTGGGAGTCTGTGCAATACAAGGTGGATAGTATTTGCAAGGAAGAGCCCTTTATCTGTCTTGCTTCCACACTAGATATACTGCCAATTTAAGTAGATGTGAACCATAAGTATAACTATTTCATGAATGCACAaggtactttaaactgtatgtgttgaaactaaattaacaagaaaacagctctttGATGTTCACCTAGTAAAATTAGATTAGAAGATAATATTTTGAAGGTTTGTTTACAGCTAAGGATTAAGGATTGACAGGAAGATTTGTGGACTACATAAACTAATGACACTACCTCCAAAGAGTTGCAAAAAGCTGTCCAAAGTTTCAGCACCATCTTTAAGCCCATGATTTTAGTGTGTTTCATGCCTAAGCACATGAGTTTAAATCTGAGATAGATGAACTATATGATAATCTTAAACTGATCTACAGGTAAATGCCAAAACTTATTGGTTtacttatttgcttgtttgtttgtttgtttgttttttttatatatgttaacCAGGTGAAATGGAGTGAGGCATACCAGGATATGTCTGGTTTTACTCTTGGGAAGGAGGTTGAACAGTGCAATATTTCTTCTATAGGATTGCAGTGACCAGACATGCTACTGTAACTCTCATGGTCATGTACTGGAATTAGCAGATATTCAACAGTTTGGCCATCTTGCTGACCTATTGATATCAGAAGACCGCAACAGCTCTGCAAAGCAAGTTGGAAAACAGAATCCATGAAACTGCCAGTGACCGGAAACCAATTGGAAGACTTTGGTCTGTGATGTAGAGGAGTGGGCAGACGcagaagcaaagacaacaaaaaacagaagtgatatggaTGTCTTCATCATATGGCATGactcTGCTGACCCAGCAACAAAGAGAGGGTGTTCAACATCATCCTGCTAGTCAGGATTCTTGAGGAGAAGCAGAGGATTCTTGTGGCAGAGATGGccaaccactataaatacctttcAACTCATCCTGGTTCCTTCAAAGAACTTTCCTGCTTGTTTGCTACTGAAaagtatgtatttgtattatttggcacagacataagcataaggttacccagtccaaaggatattaatatatttttatgttgttgtgttcttttaagattcgacatgtggcctaaacgaagaggggttaaaaggtctatggatcatcattctcagaaagcaacaaaataactgagaaataaacaacaatacgatggtgcaatctagagacctgcaaggtacctgcaagttttgg

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: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: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:0090304 nucleic acid metabolic process biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process 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:0021903 rostrocaudal neural tube patterning biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0006725 cellular aromatic compound 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:0021915 neural tube development biological_process
GO:0010467 gene expression 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:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0050789 regulation of biological process biological_process
GO:0050794 regulation of cellular process biological_process
GO:0006807 nitrogen compound metabolic process biological_process
GO:2001141 regulation of RNA biosynthetic 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:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0030917 midbrain-hindbrain boundary development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion 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:0043169 cation binding 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
ko03070 Bacterial secretion system
ko05164 Influenza A
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00003072 lncRNA upstream 107352 25440037 ~ 25442701 (+) True XLOC_000304
TCONS_00000500 lncRNA upstream 282344 25219127 ~ 25267709 (+) True XLOC_000303
TCONS_00000499 lncRNA upstream 294052 25218271 ~ 25256001 (+) False XLOC_000303
TCONS_00002832 lncRNA upstream 950065 24596326 ~ 24599988 (+) False XLOC_000300
TCONS_00003074 lncRNA downstream 166508 25719653 ~ 25721702 (+) False XLOC_000308
TCONS_00000503 lncRNA downstream 166508 25719653 ~ 25721702 (+) True XLOC_000308
TCONS_00000505 lncRNA downstream 230656 25783801 ~ 25792713 (+) False XLOC_000310
TCONS_00000508 lncRNA downstream 251497 25804642 ~ 25812959 (+) True XLOC_000311
TCONS_00000510 lncRNA downstream 295470 25848615 ~ 25849235 (+) True XLOC_000312
TCONS_00000498 mRNA upstream 233904 25218177 ~ 25316149 (+) False XLOC_000303
TCONS_00000497 mRNA upstream 333818 25178112 ~ 25216235 (+) True XLOC_000302
TCONS_00000496 mRNA upstream 335289 25178106 ~ 25214764 (+) False XLOC_000302
TCONS_00000494 mRNA upstream 991304 24557414 ~ 24558749 (+) True XLOC_000299
TCONS_00000493 mRNA upstream 1035380 24482406 ~ 24514673 (+) True XLOC_000298
TCONS_00000501 mRNA downstream 97772 25650917 ~ 25666604 (+) True XLOC_000306
TCONS_00000502 mRNA downstream 143653 25696798 ~ 25698039 (+) True XLOC_000307
TCONS_00000504 mRNA downstream 179570 25732715 ~ 25733867 (+) True XLOC_000309
TCONS_00000506 mRNA downstream 230656 25783801 ~ 25799051 (+) True XLOC_000310
TCONS_00000507 mRNA downstream 248503 25801648 ~ 25841659 (+) False XLOC_000311
TCONS_00000495 other upstream 429848 25120089 ~ 25120205 (+) True XLOC_000301
TCONS_00000490 other upstream 1165356 24382967 ~ 24384697 (+) True XLOC_000295
TCONS_00000480 other upstream 1435495 24114525 ~ 24114558 (+) True XLOC_000287
TCONS_00000478 other upstream 1683088 23866878 ~ 23866965 (+) True XLOC_000285
TCONS_00000472 other upstream 1798840 23751099 ~ 23751213 (+) True XLOC_000283
TCONS_00000518 other downstream 558240 26111385 ~ 26119624 (+) True XLOC_000317
TCONS_00000557 other downstream 2160204 27713349 ~ 27730980 (+) False XLOC_000329
TCONS_00000565 other downstream 2424225 27977370 ~ 28001937 (+) False XLOC_000332
TCONS_00000567 other downstream 2431248 27984393 ~ 27995611 (+) True XLOC_000332
TCONS_00000579 other downstream 3515517 29068662 ~ 29080336 (+) False XLOC_000337

Expression Profile

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