RNA id: TCONS_00050504


Basic Information

Item Value
RNA id TCONS_00050504
length 3751
lncRNA type antisense
GC content 0.34
exon number 1
gene id XLOC_025652
representative True

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 43650041 ~ 43653791 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CTGTGAGAACCTACTTTCCGCTTTCGAGCGCATCGGGAATAGCGTTGTATGCGGCGAGATGTGAATCGTGTCATCGATGCGGATCTCGGAgtttaaaaataacaaagaaaacagTCGCTTCTCCACCTCTCCATGGCTGTCTCTCGCACTCCTGTGCCCGTGTGCGAGtgagcgagaaagagagagaggggagcTGGAGATGTGCAGCGCCGCGCACGGCCAGAAATCACACTGCCGCCTggagaaaagaaaaatcaaggcGAGGAAACCCTGGAGTGAGAAGACGAAGAAGAAGAGGAGCGCCTTCAATCCTCTTACGCCGCACTCGAAGGTGCTGTCAGTCTGCAGTTGCTAATTAAAAGGTTTGGAAGGAAACGGCGTAATTAAAGTGATGTACACTTGATGATGAGACGCGTTTGGAGTCTTCGGGAAGAGCTGTTTTAGGCTAGGGTGAGCGGGTCGCCCCCTTATGGACGCCGCCATGTTGACATCACATGACCAGCTGTGTTGACCGTTTGTGTTTATTACTTTACGGGCGCtgatttaaacaaaataagctCAATATACACTCTATGGTgtgtaaagtaaataaataaaagcaaaaggtATTGGGGATTTCCTGTCAGGGCTAGTTTACAGACATTTCCATtaaatgggatagttcacctaaaatgaaaattcccTCACCATTTTCTtccactcaagtggttctaaactttttatgattttatttcttcagttaaacacaaaacaagatattctgaaggatGTTGAAAGCAGTCACTTGACATCCAATGTATGAacatacaaacaataaaacacCCTAAAACGACAGCAGTGAAAACACACTGTTAATCGGCTATATGCATACAGACttcattttcagccaggcagcccaagggggCTTCCtctgaactgtctttccattacaaaactttcacatttaagatctgatttctataaaaatcagcgatcttcactgcctgttaaatatatatgatatgaagtgggtctcagatcggacaagaagcactgcattaaattccatttccccctgcTAACAGTTTATTTCACCCCAACATTTTCAAAGAAATTTCTGCGCCAGCCTAATGCTGCGGTTACAACGGTCTTTCATCTtattttatgcttgagcaactaaatgattGCTAAATGattagtctatttaactgaatgtattgtaatgacaacatcgatgctgtaaaaacaaccatgtgaaattgaaaatactcacattaagctttcaccggaagtttatcgttggctttaaaactcttgCTGTGCATTATGACAGAAGAAGGGGGGTGAAAAGTATTCCCCTTAATGTCAAATCAAAtgcaatttataatttaaaaatgcaggTGAACACCACCTGTGAAAATGTacttaaccctttgactgcccaatctaccaaatggttgaccttgTTTTGACTGtttaagtcatttaaataatggtttacacgtacacacagcattgttcatttacaaaacaatcaagacataatcctgttgcactacttcacttgattttggttttattgttaaaaaaaaaacatgttaatctgaaatattttatggcatacttcaaaaaataaaggtgatttagtattcaaaaatgttttattttgattattttttaagtaaattggTTTTACACTTCGTTTTCTGATTTTTCATCGTAAATGTAtaattccggtacttttaccataaactgacatatcaaccatttagtagagattgatattttagaaattatggaaaaaaattgcattaagtgtgttaactagtgacattaagagaaaatattttttttcttgttggggCAGTTCAAGGGTTAATGTAGGCCTACATATGGTTTCTTTACATTATTAACACAGTACATGTACTTACTGCCATGCTTAATTTTAACAAGACTGAAAAACAAGACTGTGAGGGATTGAAGTACATTCTTTACAATGGATTGTAtgcttatatacagttgaagtcaaaattattagtcccctttttttctttttttatattttttccaaattatgtttaacagagcaagaaaatgttcacagtatgtctgataatattttttcttctggagaaagtcatgtttattttatctctagaataaaattagtttttaatttaaacatcattttaaggacaaaattattagcccctttaagctaaattattattattatttttttgatagtctacagaacaaaccatcgttatacaataacttgtctaattaccctaacttgcctaattaacctaattagcctagttaagcctttaaatgtatagaagtgtcttgaaaaaatatccagtaaaatatcatgtactttcatcatggcaaagataaaataaatcagttaatagaaataagttattaaaaatattatgttcagaaatgtgttgaaaaaatctctccattaaacagaaattggtgaaaaaataaacaggggcgctaataatttaggggggctaataattctgacttcaactttatatatatatatatatatatatatatatatatatatatatatatatatatatgtattcagACCTAATGAAAACTAACTATGGTTTTGCTACATATAAaacagatgtttgtttgtttgtttgtttgtttgtttgtttgtttgttaaacaaTGGTAACcacattttaagttaaaaaaaagattttacaaattataatcgATACACATAAAAATGGTTAGCCTACTAAACTACTAAAATAAAACTATGGTTAGTAATATGGACTTAAGGGAGGGTTTTTCCACATCTGAGGAATAGTAAGGGGGTCAGGGGAAAATTTGGGGGGAATAAAagcatcaaaaatgtaaaaatgaataaaaaaaaaactaattatttaattaacttattcaAAAAAGCTAAAACAATCAAAGATCAACCAAGTGCacgttcatttattttcatttggcttagtccctttatgtatcaggggttgtcacaatGGAACGAACTGCTAACTATTcaattatgttttacacagccacaatccagtactgggaaacgcccatacacactcattcacacacactatggccagtttagcttacccaattcacctgtaccgcatgcctttggactggggggaaaccagaacacctggaggaaacccaagtgaacatagagagaacatgcaaactccacagagaaataccaactggccaaGCCAGGATTTAAACcaatgacattcttgctgtgaggcgacagtgttaaccactgagccaacgtgtcACCCGCGCATTAgtgtaaattttaaaatatgaatataaagcagtatattaaataaataatacagaaatatgattaaaatgaacaaataaaacaaattaatttgattaaaactgTTTATTGTGTTATTGTGTTTATTGGTTGTTTGTTGCAAATCAAGAAATAAAAACTAGCTGAAATTTTGCTGACTGAAATCGCAGATTTTGCATCACAGAATCAGAAGTTTTCGGTCATCCTGGTACTGTTTGCCTGATTTATGAGTACTATGAATATactactcagctcacatactCTTTTTTCACAGACATACTGTATAGTAATGAAGTTGGCACATTTGAATGCAGACTTAGACTATTCCCTCACAGTCTCATTCTCATACAGTCAAAATTCCCTGTCTCGTCTGAATATACACCATTGTGCTTTTTCTCATAAGCTTTATAATCACAGTATTGCAATAAAGCTTGACTCA

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:0008152 metabolic process 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:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity 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:1904029 regulation of cyclin-dependent protein kinase activity 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:0010467 gene expression biological_process
GO:0044237 cellular metabolic process biological_process
GO:0010468 regulation of gene expression biological_process
GO:0044238 primary metabolic process biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0071704 organic substance metabolic 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:0005634 nucleus cellular_component
GO:0043227 membrane-bounded organelle cellular_component
GO:0043229 intracellular organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0005488 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:0001067 regulatory region nucleic acid binding molecular_function
GO:1990837 sequence-specific double-stranded DNA binding molecular_function

KEGG: NA

Ensembl:

ensembl_id ENSDART00000164680

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00052759 lncRNA upstream 321282 43200317 ~ 43328759 (+) False XLOC_025649
TCONS_00052368 lncRNA upstream 434985 43200616 ~ 43215056 (+) True XLOC_025649
TCONS_00052758 lncRNA upstream 447291 43200317 ~ 43202750 (+) False XLOC_025649
TCONS_00050497 lncRNA upstream 514548 43102010 ~ 43135493 (+) False XLOC_025648
TCONS_00052757 lncRNA upstream 894873 42754657 ~ 42755168 (+) True XLOC_025643
TCONS_00052760 lncRNA downstream 31873 43685664 ~ 43687657 (+) False XLOC_025653
TCONS_00052761 lncRNA downstream 32443 43686234 ~ 43687657 (+) True XLOC_025653
TCONS_00050505 lncRNA downstream 57276 43711067 ~ 43755843 (+) False XLOC_025654
TCONS_00052762 lncRNA downstream 58078 43711869 ~ 43755843 (+) False XLOC_025654
TCONS_00052763 lncRNA downstream 89668 43743459 ~ 43755843 (+) True XLOC_025654
TCONS_00050503 mRNA upstream 170992 43467595 ~ 43479049 (+) True XLOC_025651
TCONS_00050502 mRNA upstream 174261 43460696 ~ 43475780 (+) False XLOC_025651
TCONS_00050501 mRNA upstream 252907 43374571 ~ 43397134 (+) True XLOC_025650
TCONS_00050498 mRNA upstream 256788 43373867 ~ 43393253 (+) False XLOC_025650
TCONS_00050500 mRNA upstream 269233 43373918 ~ 43380808 (+) False XLOC_025650
TCONS_00050508 mRNA downstream 120578 43774369 ~ 43808322 (+) True XLOC_025657
TCONS_00050509 mRNA downstream 171994 43825785 ~ 43831030 (+) False XLOC_025658
TCONS_00050510 mRNA downstream 172227 43826018 ~ 43829729 (+) False XLOC_025658
TCONS_00050511 mRNA downstream 172228 43826019 ~ 43826520 (+) True XLOC_025658
TCONS_00050512 mRNA downstream 302073 43955864 ~ 43987286 (+) True XLOC_025659
TCONS_00050499 other upstream 265863 43373895 ~ 43384178 (+) False XLOC_025650
TCONS_00050475 other upstream 2149516 41500409 ~ 41500525 (+) True XLOC_025630
TCONS_00050468 other upstream 2855162 40792230 ~ 40794879 (+) True XLOC_025623
TCONS_00050467 other upstream 2855201 40791746 ~ 40794840 (+) False XLOC_025623
TCONS_00050466 other upstream 2856489 40791746 ~ 40793552 (+) False XLOC_025623
TCONS_00050506 other downstream 60908 43714699 ~ 43714783 (+) True XLOC_025655
TCONS_00050507 other downstream 63036 43716827 ~ 43716915 (+) True XLOC_025656
TCONS_00050515 other downstream 1234246 44888037 ~ 44888153 (+) True XLOC_025662
TCONS_00050528 other downstream 1981286 45635077 ~ 45635186 (+) True XLOC_025668
TCONS_00050561 other downstream 3806697 47460488 ~ 47460603 (+) True XLOC_025690

Expression Profile

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