RNA id: TCONS_00052642


Basic Information

Item Value
RNA id TCONS_00052642
length 5088
lncRNA type antisense_over
GC content 0.33
exon number 2
gene id XLOC_025270
representative True

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 21245897 ~ 21251807 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CATCCACTGATACAGATACAATACTCAGGCTGGTTAAACTGCATTTTTAGATTTGTAATATGTTTCAATAAAATATTGCTATTGAATTTTGCTGTCTTATTCAGATttgcattacagtttttcttgtttgctttgacctggttaaagaaactataGGTTCCACTTTATTCTCctcatcactatcccagcagagcagaagacaggtcttgcaaatatgtaaaccctttctcattgggttgacacattttccccaccgtttttcaaaacagttaacactgATGTCATTCAAttagtccaaactccattgttttagctatggtaaccaaacagaaaccatttaTTCCTAACaattagaaactaccaagatcagtatgaattcactgaagcaccggtttgacactccatCACACAAATCTttaattagcaatcagtctgcaaacatcgaaaacggtggaaggtctgtgttctTCAGTGCTAGCATAGATGGAGGAGGTCAAAAGTGGCTAATAGATTTGACTGTTTATTGGTTTACAcatgttttctctaatatttacagtaatcaAAGCATgtcttattctggatccaattctttgcaaaaaggcaaatttgacagcccaaatagaaagacaataaACGGCATTGGCAATAgtctacaatggcaagcaatgatgcacactgagttctgtattttgtattccATTGTGGTATGGTtgattgaaagagctcatatacttgtttgaaagttgtgttgtttgaaggtaaaactagcttttgttgcatattttaaatgttttgacacggtatgtgcGTTTTGCAagcaaatgtgtcattttgaccatgagtgccgctgtttaggcttGTGTGTTTACTGTTTTGAAAACGTGGAGATTCAGTTGACGACTGCATCAAAGCAATGAAGAAAAACTGCAAGTTACTGTTTTGAACATAAGTTTAACAATTTGGAAAACAGTATGTAAGCACGGACAAAACGTCCTGTATGTACAAAGATTTTTGGCAGTTGTCGTGTCTGAGTGAGAAAAAAAGAGTTTGAGAGATGTAGTCATTGAATGCATTTTGTGCCAAAACAATGATAATTGATCCTTAGTTTAGCTCACAAAGACTTCTGTTGTGCTCACTGTGTGAAGAGTTTTGCAAAAgcgtttataaaaaaataaataaaccgttgcatttatttatttacacttttttagttacaccttactagtaccaagttGGACCCTATTTTGCATttagatctgccttaatcctttgtggcatagattcaacaaagtggTCATTCAAATATTCCTAAGAGATTCCTTAGAGACATGtctaccttataaagtggccattgagtgtagTTAGATCTATATGTCTATAATGTGTAAGTAATTTTAGGTACATTGCATTTCAATTTCCTCAAGGACAAAATCATAACTcatacattataaatatttaaaccgTATATTTGATTACTTTAGGcccatttaattttaaaacatacgtgagtgtttaattattttacttgcattttcaatttgtttttcaaatgatcCAAGTGACATTTTTTACCACAttcaattaataatattattgttttgcaTATATAAGAGTAATTACTTTTATTAGAGAATGTTTTTCCTAACgtttttcacaaatgcaaaattaaaacataaattcttaatatttacatgtatatttGATTACTTTAGTTCTATTTGATTTCCCCTTTCATCTAGTTAGCATATTcataaaattacaacaaaacattaacaaattcAGCTATGTACAACAATTTGTCAACTACAGTATGTCCATCAGTCAATGTCTTTTATTGTCATCTATATCAGACAAGCAACATACAAGACAGGACAAAATACACAGCCATATTAACCTAGTGATTCAGTTAATGGACACTCACCACATCAAGAGAATTTACACTATTTTGAATCCCAGTATCTCCATAACTGcacatatacattatataataacACATCTGATACATCACCTACATAATATGCTGATTGTATTGTAGCTTTCCTTTTTAGAAGTTTcaacaagaaataaataaataaaaaaatgtttcctgATTCAGAAAACAATGTCACTTCCTAAACAGAGAAAGGATAAACATTATTCTATGACACCGTCAAATGCAAAGTACACAATTAATATGATTATTTCCGACAGTTGTTTAGGTAATAAATTTATAaagatatttatgtattatattacatCTTTgtcgttaaataaaaatatgctggtttcatatatatatatatatatatattcaggtacataattatgcacatttttctgttttccaaaacttaattgaaaataaaacattatttatctgTAACATAGAACCCTGCTGTTCCAGTGCAAGGATTATTAACTatgatcaaaaaataaaatagcaaaagatGGCCAGATAAATCTATATTAAGGGTGCTACAAAGACTCGTTACATACATAATGAAAGTTTTTTTCACAAGTTAAACACCATTGTAATGATTAATCATGATCATTTCCCTAAAGATTTCACATGATCCCATTTAAATGAAGTAAATTTATAGTGACTTTTTGATAACATCCCAGCAGACACGTCATAAGAcattattattaggttagatttaagttgccagcatctaaggacaatgttattttgatgtccaataacaacgatatgtggatgattttaggttgtgttggaaagtgacaaaaACCCAgtattgagccaacatcttaatacaacgtcaaattgacatcaaatacttaCATTTAATTGTCaggtacaacaaaacaaaaacccaaGGAGTGGTAACATCGACACAACGTCAagatgtaacatcattagatgttgatatttggttgattttaggttgcgttggaggGTAACCGAAATGCAACGTCTGACAATGGCGCCCACGACATTGAGgtacgtcaatctgacgtcatgttgatgttctgtgcctgctgggatttgCGTTAGTTTGTTTTTCTGATAAATTTAATTGCTTTAACTTAGCAATGGTCTGGCCAtacttcaaaaacatttttcaaagtcaGGAATCGAGTGTTGCACCACATATGTTTACATTCGCGATTAAATGACATACCATCATTAAAGGTTATGTCTAAATCACTGGTATAAAAATGTAAACGTCTACCATGCTGAAAATAACATGCACAGTGGCCccaaacatttgtcaaaataaaCGTTTCCATAGCTGTGATCTTGCCCACAGAAGTGTATTATATTCGATGACGTAAgagtgcccaggcccgattgtagtgtgagtgcggggggacaagtgtgctttggcccggttcgaggcaactgtacatagtgtgagtacggcctaagacaactcaaactgtttgaggaaatcgattgcaacaaaccatttgagttaaaaaaaatcgacagtatatgagtactgtgaactttctccatttaagttgaagtaattagGTATTTacttaactcattacctttaacactgagttcaaaactcttttcaaatgagtagatttACTTTCAGGAAGTTTTGAgttaagttgactgttgggttttacagtgtactaatattttaaatgtttaatgataGGAACACATATGTGTTTATGACTCAATATAAATAAGTTAACATTACTCAAACCATTTTGTTTCAAAGCGTAAGTGTATAGTGAATGGAAAAACACTGCTCTGCtttgaataatattaaaatggtttaagcttaaatataaatgtttatgatTTTAATAGCCATTAAGAGAGCAACAATTGATAATTTACCTCCTAATTTCGTGACAGGTCTTGAAATGCATACCTTACAATACATGCATACACATTAGCGTAAGTTGACAGTTATAGCTTGCTGACTGCTATTTGATGAACAGAAAAGGAATAAAATGTCGCTGAAAAACATTGTAACCAAAACAATAgacaaaatgtgtgtaaaaacacaataaaaaacatGATATGATACAGatactaaatacattttgataaatggCAGCTAAAGTGACTTAACAAAAGTCCCTGATATTGCATGAAAAAAAGATCTGAAAATCCTCGACTTACCCTGCTATACATTTTTCACTATTACAAGTGCACACATACAATAAGTGCATTCAACTGAgcattgtttgtgtgtttagtaAATTCTGTCACAAAACATAAGGTATAAAAGCCAGTTTCTTTTGCTTCATCTCCTTTGATTTGCTCTTAAAAATGGCAGGAATGCTAACTGACCcaaatgtgatttttaatgaaattatttaGCTAATTTTCAGGTCAATCACAGAGGTTTTCCCCTTAATCACAATAAAAGTGTTGTCTATCTATAGTAACTGTATGTGAAGCAATACAGTCTAGTATAATCGATGCAGATCAGAATGTTGTGCGAGGGTACAAGTTTTCTCTTTGCCAGTGTTTAGCTTTCAATTCAAGTTAAGTTTTATATTTTGAGTAGTATTTGAGGCCACTGTACATATGAAATGTTGCCTTTCTGTAAAGAAACCTTAAAATAATGCAATCGCTGgcatgctacaaaaaaaaaacaaacaaacaaaaaacggcTTCCATTTCAGCAACCTACAAATTCCCTTCCagtatttttttactttcattatcTGTAAGATCTTACATAGGTTCTTTTGCTACGCTCTGTGCCAACAATGCAGATATTTATTTTATCCTACATAGTTTTGTTTAGCCTTGGTAAAATGGCAGCACAAAACTACTTATGGATTATCTTGTGGCAGGTTAAGAGTTCATGTAACAATCTACTTAATCACCTACATGTTTTAACATTAAAAGACACTGTGGTCTCTGAAAATATTAAGTTTGGTCACTAGTTAGTGCCTTTACCTATTGTAGAAATAAACATACAGCTTTCTTTTTTCACAAGTCTAGATAATTTGTTCTAAACTAATCCTGTTTTCTCTAACAGACACTTGGAAGTGTTTACTCTGGATGGACCAATCACCTAAATCCTCCCCAAGCCCAAAATAACCCTGAAACTGAAGGCAAAAATTCCTAGTGGCACAAAATCTAGTGTACAGATCTTGTGCCACGGc

Function

GO:

id name namespace
GO:1902600 proton transmembrane transport biological_process
GO:0031290 retinal ganglion cell axon guidance biological_process
GO:0043062 extracellular structure organization biological_process
GO:0030198 extracellular matrix organization biological_process
GO:0098655 cation transmembrane transport biological_process
GO:0015985 energy coupled proton transport, down electrochemical gradient biological_process
GO:0015986 ATP synthesis coupled proton transport biological_process
GO:0005753 mitochondrial proton-transporting ATP synthase complex cellular_component
GO:0044421 obsolete extracellular region part cellular_component
GO:0016469 proton-transporting two-sector ATPase complex cellular_component
GO:0031012 extracellular matrix cellular_component
GO:0005576 extracellular region cellular_component
GO:0045259 proton-transporting ATP synthase complex cellular_component
GO:0031672 A band cellular_component
GO:0031430 M band cellular_component
GO:0098800 inner mitochondrial membrane protein complex cellular_component
GO:0046933 proton-transporting ATP synthase activity, rotational mechanism 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_00049879 lncRNA upstream 52950 21189804 ~ 21192947 (+) True XLOC_025267
TCONS_00052640 lncRNA upstream 102526 21137095 ~ 21143371 (+) False XLOC_025266
TCONS_00052641 lncRNA upstream 102526 21138586 ~ 21143371 (+) True XLOC_025266
TCONS_00052639 lncRNA upstream 179059 21057854 ~ 21066838 (+) True XLOC_025265
TCONS_00049875 lncRNA upstream 330743 20913310 ~ 20915154 (+) True XLOC_025263
TCONS_00052643 lncRNA downstream 60777 21312584 ~ 21320485 (+) True XLOC_025271
TCONS_00049882 lncRNA downstream 127189 21378996 ~ 21394931 (+) False XLOC_025272
TCONS_00049883 lncRNA downstream 127250 21379057 ~ 21596667 (+) False XLOC_025272
TCONS_00052644 lncRNA downstream 170963 21422770 ~ 21597908 (+) True XLOC_025272
TCONS_00052645 lncRNA downstream 678121 21929928 ~ 21951425 (+) False XLOC_025274
TCONS_00049881 mRNA upstream 15229 21225750 ~ 21230668 (+) True XLOC_025269
TCONS_00049880 mRNA upstream 27764 21200763 ~ 21218133 (+) True XLOC_025268
TCONS_00049878 mRNA upstream 47153 21189766 ~ 21198744 (+) False XLOC_025267
TCONS_00049873 mRNA upstream 784195 20404912 ~ 20461702 (+) True XLOC_025260
TCONS_00049872 mRNA upstream 1014116 20156956 ~ 20231781 (+) True XLOC_025258
TCONS_00049884 mRNA downstream 417738 21669545 ~ 21889616 (+) True XLOC_025273
TCONS_00049886 mRNA downstream 784056 22035863 ~ 22057600 (+) False XLOC_025275
TCONS_00049887 mRNA downstream 784306 22036113 ~ 22055493 (+) False XLOC_025275
TCONS_00049889 mRNA downstream 784584 22036391 ~ 22037717 (+) False XLOC_025275
TCONS_00049891 mRNA downstream 805302 22057109 ~ 22155532 (+) False XLOC_025275
TCONS_00049877 other upstream 215024 21025153 ~ 21030873 (+) True XLOC_025264
TCONS_00049876 other upstream 215026 21025153 ~ 21030871 (+) False XLOC_025264
TCONS_00049874 other upstream 565859 20679923 ~ 20680038 (+) True XLOC_025262
TCONS_00049853 other upstream 1890959 19349438 ~ 19354938 (+) True XLOC_025242
TCONS_00049893 other downstream 807506 22059313 ~ 22061088 (+) False XLOC_025275
TCONS_00049913 other downstream 1317180 22568987 ~ 22569106 (+) True XLOC_025283
TCONS_00049938 other downstream 1983861 23235668 ~ 23239458 (+) True XLOC_025294
TCONS_00049946 other downstream 2421570 23673377 ~ 23673455 (+) True XLOC_025303
TCONS_00049951 other downstream 2442349 23694156 ~ 23696013 (+) False XLOC_025306

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
rainbow trout (Oncorhynchus mykiss) TU118261 True 1313 lncRNA 0.41 3 NC_048566.1 1702955 ~ 1704846 (+)
rainbow trout (Oncorhynchus mykiss) TU2314907 True 699 lncRNA 0.39 1 NC_048590.1 34720994 ~ 34721692 (-)
eurasian perch (Perca fluviatilis) TU118261 True 282 lncRNA 0.40 1 NC_053119.1 24905493 ~ 24905774 (-)