RNA id: TCONS_00005664


Basic Information

Item Value
RNA id TCONS_00005664
length 548
lncRNA type inter_gene
GC content 0.37
exon number 3
gene id XLOC_001786
representative True

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 540293 ~ 543589 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

atgaaaaattgtaactgttactattactgtcattttttcagtagcagaagcAAAGACAACAAACAACAGATATGGCATGactctgctgacccagcaacaaagaggagggtgttcaacatcatcctgctagtcaggattcttcaggagaagcagaggattcttgtggcagagatggccaaccactataaatacctttcAACTCATCCTGGTTCCTTCAAAGAACTTTCCTGCTTGTTTGCTACTGAAaaattcgacatgtggcctaaacgaagaggggttaaaaggtctatggatcatcattctcaaaaagcaacaaaataactgagaaataaacaacaatatgatggtgcaatctagagacctgcaaggtacctgcaagttttggctggagcagagaacatagattttttaaataaagctccagctgatgagtatgacattgactgtggattttcttttactgtaatccagaagaggatgaccttaaccctgaatctaaagcatgtaataaaatctgtaaaaaaaatcaaataaaattttcatcatct

Function

GO:

id name namespace
GO:0045995 regulation of embryonic 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: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: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: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: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:0031326 regulation of cellular biosynthetic process biological_process
GO:0006139 nucleobase-containing compound metabolic process 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:0010468 regulation of gene expression biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0060485 mesenchyme development biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0007369 gastrulation biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0050789 regulation of biological process biological_process
GO:0050794 regulation of cellular process biological_process
GO:0060795 cell fate commitment involved in formation of primary germ layer 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: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: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:0060322 head 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: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: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:

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_00005662 lncRNA upstream 1523 540293 ~ 541332 (+) False XLOC_001786
TCONS_00005791 lncRNA upstream 121963 419233 ~ 420892 (+) True XLOC_001779
TCONS_00005661 lncRNA upstream 144096 398344 ~ 398759 (+) True XLOC_001776
TCONS_00005790 lncRNA upstream 258924 282324 ~ 283931 (+) True XLOC_001773
TCONS_00003568 lncRNA upstream 348973 190543 ~ 193882 (+) True XLOC_001769
TCONS_00005797 lncRNA downstream 47015 590604 ~ 592860 (+) True XLOC_001788
TCONS_00005798 lncRNA downstream 190198 733787 ~ 793309 (+) False XLOC_001789
TCONS_00005799 lncRNA downstream 190215 733804 ~ 796894 (+) False XLOC_001789
TCONS_00005800 lncRNA downstream 233752 777341 ~ 793309 (+) False XLOC_001789
TCONS_00005665 lncRNA downstream 242149 785738 ~ 793388 (+) False XLOC_001789
TCONS_00003584 mRNA upstream 10227 518546 ~ 532628 (+) True XLOC_001785
TCONS_00003582 mRNA upstream 30549 506538 ~ 512306 (+) False XLOC_001784
TCONS_00003581 mRNA upstream 37485 466926 ~ 505370 (+) True XLOC_001783
TCONS_00003580 mRNA upstream 88233 453619 ~ 454622 (+) True XLOC_001782
TCONS_00003579 mRNA upstream 93696 439692 ~ 449159 (+) True XLOC_001781
TCONS_00003585 mRNA downstream 19663 563252 ~ 566607 (+) True XLOC_001787
TCONS_00003586 mRNA downstream 30078 573667 ~ 590083 (+) False XLOC_001788
TCONS_00003587 mRNA downstream 32340 575929 ~ 589428 (+) False XLOC_001788
TCONS_00003588 mRNA downstream 42130 585719 ~ 589660 (+) False XLOC_001788
TCONS_00003589 mRNA downstream 45912 589501 ~ 591847 (+) False XLOC_001788
TCONS_00003583 other upstream 35599 506563 ~ 507256 (+) True XLOC_001784
TCONS_00003569 other upstream 330908 211782 ~ 211947 (+) True XLOC_001770
TCONS_00003590 other downstream 261655 805244 ~ 805359 (+) True XLOC_001790
TCONS_00003597 other downstream 1121333 1664922 ~ 1665038 (+) True XLOC_001797
TCONS_00003605 other downstream 1631994 2175583 ~ 2267357 (+) False XLOC_001805
TCONS_00003616 other downstream 2144976 2688565 ~ 2688681 (+) True XLOC_001815
TCONS_00003633 other downstream 2441455 2985044 ~ 3026523 (+) True XLOC_001822

Expression Profile

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