RNA id: TCONS_00057383


Basic Information

Item Value
RNA id TCONS_00057383
length 1458
lncRNA type inter_gene
GC content 0.46
exon number 2
gene id XLOC_028952
representative True

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 37328527 ~ 37333793 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

aaacactatacacacacacacacacacacacacataaataatataaaagttaaataaaatgtcaacaaaataaatacactatttaaagaaaatgttaaataaaaatataaactaacagcaagtgaaattgaataaactgaagaactattacactatatacatacacaaacaagcaaacacattATTTTGGGTTGGTCCTTTTCATTTCCTCTAGCCACTCTTCTTTAGTTAAAGTTTCAGTCTGTGGGCAGTACACCCTGCCCCTGAGTTGGCTATGGCCTGTGGCATTTGTTTTGAACTGCCCACACTTTTTACAAGTGTTCGCTTGAACAGTTCTACGGTACGGTCTTTTGGGAATGGCTCCAGATGTGGACGGTGATGCGGCAGGCTGTGAGCTGGTACTGGACATTGTTGGCTGAAGTGGTGGCTGTCTGAGTGGCATCCCCTGCACCATTGGGATACCCTGGGCCATCTGCACTCCTTGCATCATCGGGATACCCTGGGCCATAGGGATTCCCTGGACCATTGGCACAGCCTGTAACATTGGTACACCCTGAAACATCGGCATACCCTGGTACCCTGGTGTAGCTGGGATGTATATGTTGGGTACCATCTGCAGCGATGCTccaggtgctggtggtgtaaatatgacCTGGGTCTGTACTGGTGCCTTAGGTCTGAGTGGGGGTCGTCCAACAGATGTCTGCCTCTGCCTTGCCTGACCTGCTGTGCTCTCTGGCAAGTGTCGAGCTGCATACACCACCCGCTTCTTGTCTTGGTCATGCAGGCTTTGCCAAAGACCAATGATCTCGTTGGCCTCCTGGTTGGTGAGGCTGAGGCTTTTGTGGGTCCGAAgctcaaccagatattcagccagCCTGTCCACATGCTGGAAGCCCGGAATATTTTGGTAGTCAACAGCTTAATGaaagcacaacaaaataaaatagcataTTCAATTTTTCAATGCATAATTCCATAATTGTTTCTGTTATCATGTTGAAGCTGCACTACGGAAATAAACTTGATGCGTGTTtgactttacactttattttaaaattattctagATCACTGTAAAGACAGAAATTAGTGGGACTTACAGTctcttcatcaccatcatcatcgtcgtcatcatcattgTCTTCGTCATCATCTTCCGTAGCCTCTTCTGGCTCTAAGGGCACAGGTGAAATTGGTTCTTCAGGCTGCGCAGGTGGGTCAGGGACCAGTGCAGGGCATGTGGAGACTGGCAAAGAAGCGACACTGCTGGTGACTGCAGTGGAGGAACCcgatctcaatgtggaggaggatGGTGACAGAGCAGCCTCCGGATCAACAATAGTGTGATCCTCACTGATGTCACAGAAGCCCTCATCTTCTTCTCGCTCATCCACATTGAGATCCTCAATGAGCTCAGCAGTCTGCTCACAGTCTGGGTTCATGTTCTGCAGTGCCTG

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:0021532 neural tube patterning 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: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: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_00057382 lncRNA downstream 55484 37272018 ~ 37273043 (-) False XLOC_028951
TCONS_00057381 lncRNA downstream 55484 37272018 ~ 37273043 (-) True XLOC_028951
TCONS_00058266 lncRNA downstream 57297 37267210 ~ 37271230 (-) False XLOC_028950
TCONS_00056012 lncRNA downstream 156222 36764181 ~ 37172305 (-) True XLOC_028945
TCONS_00057380 lncRNA downstream 557870 36764140 ~ 36770657 (-) False XLOC_028945
TCONS_00057384 lncRNA upstream 45344 37379137 ~ 37380416 (-) False XLOC_028953
TCONS_00058267 lncRNA upstream 45377 37379170 ~ 37380395 (-) True XLOC_028953
TCONS_00058268 lncRNA upstream 272616 37606409 ~ 37607499 (-) True XLOC_028956
TCONS_00058269 lncRNA upstream 361828 37695621 ~ 37696534 (-) True XLOC_028957
TCONS_00058270 lncRNA upstream 446063 37779856 ~ 37783475 (-) True XLOC_028962
TCONS_00056018 mRNA downstream 92033 37230587 ~ 37236494 (-) False XLOC_028949
TCONS_00056019 mRNA downstream 92892 37230842 ~ 37235635 (-) True XLOC_028949
TCONS_00056017 mRNA downstream 534869 36792274 ~ 36793658 (-) True XLOC_028948
TCONS_00056016 mRNA downstream 536383 36791732 ~ 36792144 (-) True XLOC_028947
TCONS_00056014 mRNA downstream 537132 36789137 ~ 36791395 (-) False XLOC_028946
TCONS_00056023 mRNA upstream 142574 37476367 ~ 37479399 (-) False XLOC_028954
TCONS_00056024 mRNA upstream 143871 37477664 ~ 37479395 (-) True XLOC_028954
TCONS_00056025 mRNA upstream 243734 37577527 ~ 37587110 (-) True XLOC_028955
TCONS_00056026 mRNA upstream 342370 37676163 ~ 37696010 (-) False XLOC_028957
TCONS_00056027 mRNA upstream 342533 37676326 ~ 37693537 (-) False XLOC_028957
TCONS_00056020 other downstream 57297 37267210 ~ 37271230 (-) False XLOC_028950
TCONS_00056022 other downstream 57485 37268662 ~ 37271042 (-) True XLOC_028950
TCONS_00056021 other downstream 57937 37268567 ~ 37270590 (-) False XLOC_028950
TCONS_00056015 other downstream 537562 36790179 ~ 36790965 (-) True XLOC_028946
TCONS_00056013 other downstream 538820 36789137 ~ 36789707 (-) False XLOC_028946
TCONS_00056030 other upstream 396326 37730119 ~ 37730282 (-) True XLOC_028959
TCONS_00056031 other upstream 397636 37731429 ~ 37731577 (-) True XLOC_028960
TCONS_00056033 other upstream 687681 38021474 ~ 38021637 (-) True XLOC_028963
TCONS_00056034 other upstream 689235 38023028 ~ 38023176 (-) True XLOC_028964
TCONS_00056036 other upstream 702149 38035942 ~ 38036905 (-) True XLOC_028966

Expression Profile

//