RNA id: TCONS_00061442


Basic Information

Item Value
RNA id TCONS_00061442
length 1028
lncRNA type inter_gene
GC content 0.38
exon number 5
gene id XLOC_030229
representative False

Chromosome Information

Item Value
chromosome id NC_007116.7
NCBI id CM002889.2
chromosome length 72500376
location 34293261 ~ 34295073 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ctttttaTTGTCATACACAGttacatgtgtttgttttctCATTGTGCTGTATGAATTTCTCTCTTAGGAGATGGAAGTCGAGGAACAAATTACAGTCACTCTTAACACTTCTACACCGCGTTTTTGCAACTGTCTTCATAGACAGAAAGGAAATATGGAGAAAACTATTCACAGATGGCAATGTTGGAGATCTGATAGCCTTAGTCAAACTGGAACGGTCTCAACAACTATCTTTTGATTGAATATTGAAATTTGACAGATTTTCAAGTTCATTGACACTGATGTAAATGCAGGAGTAAAGGAGCTTGGCAAAtttcaaatatattatattgCAAGCAACACCCCAGACTCATTAGAAAGAAGTGTGCACTCATTACAggtaaaacattaatatatttctcCCTTTATATTACCATGGATAAacgtaaacatttaaataaataaaatgttttggcaTTTCTTAGTGTCCTTTAACAGATTCAACTCAGACTGGCAACACAACTAGTTTGCTGACGCTGCTTGAAGAAAAGCCTCTTCAATCCTGAGAGAACATGAAGACTGTCAAAAAGTTGCTGTCAGTGTCCTTGTAGAGAAACATGGATTctATCCTTCTGGTACAGAAAAGCTGGTACTAGCAAAAGAGATTCTGTCATTGTTCCCCTCAGGTGCCCTTTGGTGAAAATGAGGGACATgccATCACACAGTCAGACGGAAGCTTCAACAGAGCCAGTGGGTGTACAGTTTAAAACATCATCATTGTACACCGCAACCTTCTTCACCAAGTCCAGATGAAACCGTACCAATTACAGAAGAAGATGGATAACAACAAAATCCCTTCAAAATCTCTTGCTGAAATCTTCAAGGACTATCCCAGATTTCTTGACATGCCAGCtttgaTGGACATTGAATTTTCCAAGCTCACAGATGGGAACGAAGACTTGTTTATCCAGAAAAGGGAAGGGACGATAATTCCAGAACTCAAAGAAATAGCATCTTGGAGAAGAAAATTGACATCAGACTCTTACTGA

Function

GO:

id name namespace
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0016070 RNA metabolic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0003401 axis elongation 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:0060429 epithelium development 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:0044249 cellular biosynthetic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0003002 regionalization 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:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0060028 convergent extension involved in axis elongation 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: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: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:

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_00061439 lncRNA upstream 355841 33935619 ~ 33937420 (+) True XLOC_030228
TCONS_00061735 lncRNA upstream 954792 33332449 ~ 33338469 (+) False XLOC_030221
TCONS_00061736 lncRNA upstream 954792 33332548 ~ 33338469 (+) True XLOC_030221
TCONS_00059098 lncRNA upstream 954795 33332548 ~ 33338466 (+) False XLOC_030221
TCONS_00061734 lncRNA upstream 1010386 33281163 ~ 33282875 (+) False XLOC_030218
TCONS_00059108 lncRNA downstream 254738 34549579 ~ 34574051 (+) False XLOC_030231
TCONS_00059111 lncRNA downstream 294086 34588927 ~ 34593635 (+) True XLOC_030232
TCONS_00061739 lncRNA downstream 338740 34633581 ~ 34638619 (+) True XLOC_030233
TCONS_00061740 lncRNA downstream 348606 34643447 ~ 34797351 (+) False XLOC_030234
TCONS_00061443 lncRNA downstream 348625 34643466 ~ 34789073 (+) True XLOC_030234
TCONS_00059104 mRNA upstream 624301 33611951 ~ 33668960 (+) True XLOC_030227
TCONS_00059103 mRNA upstream 767584 33519943 ~ 33525677 (+) True XLOC_030226
TCONS_00059102 mRNA upstream 788294 33503108 ~ 33504967 (+) True XLOC_030225
TCONS_00059101 mRNA upstream 792930 33498253 ~ 33500331 (+) True XLOC_030224
TCONS_00059100 mRNA upstream 801326 33488860 ~ 33491935 (+) True XLOC_030223
TCONS_00059105 mRNA downstream 112922 34407763 ~ 34542470 (+) False XLOC_030230
TCONS_00059106 mRNA downstream 112922 34407763 ~ 34542480 (+) True XLOC_030230
TCONS_00059107 mRNA downstream 254524 34549365 ~ 34575502 (+) False XLOC_030231
TCONS_00059109 mRNA downstream 255004 34549845 ~ 34574184 (+) True XLOC_030231
TCONS_00059110 mRNA downstream 283638 34578479 ~ 34600710 (+) False XLOC_030232
TCONS_00059093 other upstream 1010386 33282261 ~ 33282875 (+) True XLOC_030218
TCONS_00059088 other upstream 1299370 32993786 ~ 32993891 (+) True XLOC_030216
TCONS_00059085 other upstream 1360493 32924918 ~ 32932768 (+) False XLOC_030215
TCONS_00059082 other upstream 1406663 32886472 ~ 32886598 (+) True XLOC_030213
TCONS_00059081 other upstream 1407375 32885760 ~ 32885886 (+) True XLOC_030211
TCONS_00059114 other downstream 625554 34920395 ~ 34921911 (+) True XLOC_030237
TCONS_00059121 other downstream 1163393 35458234 ~ 35461749 (+) False XLOC_030242
TCONS_00059135 other downstream 2210632 36505473 ~ 36506619 (+) True XLOC_030253
TCONS_00059140 other downstream 2304266 36599107 ~ 36609700 (+) False XLOC_030256
TCONS_00059142 other downstream 2304308 36599149 ~ 36605565 (+) True XLOC_030256

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01090438_00002297_00002521.mRNA True 713 mRNA 0.34 1 CI01090438 2297 ~ 3009 (+)