RNA id: TCONS_00058277


Basic Information

Item Value
RNA id TCONS_00058277
length 1176
lncRNA type read_through
GC content 0.46
exon number 4
gene id XLOC_029004
representative True

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 40552159 ~ 40598742 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GAATCATTCAGTCTGTAAGAGTTTCAGCCTCCACTAAACCACCATTGATTTATTTTACTCCTGATTATCACTGGAGTCAGGGGTTATTGCTGCGGATGTGAAGAGAAGAGTTTACACATGTCATGTTTAGTCAgtaaaacacttcagcacaggGTCCAGCGGTGTTTCCTCCATCATGATCATCATCTCCATCCATCCTCACAGAGCAATTAGAGCACTGAGTTCTCCTACAAGATGGCTGAGCTCCATGTGTTTCTGGGTCAGAGGATGGAGGAGCAGGGAGAGGTGTGCACTGGGGCCTGTGAGTGAGGTGTCTGTGGAGACTGCCTGACACCATTGACGTCTACACTGTTCTTTCTTACTGATGAAGTAGAACATTCTACTAAATATCTCCCTTCTTACAGTTATTTTCCTTGATTTGATATGTAAGAAATCTGCATTTTCTACACTGATCTCACTGGTAACAGCACTAGTCCTACATGTTAGACTGATGTCCAGCGGTGTCCAACTCATCAGACCAGTGGGAAATCTCTAGACACTGTTATGGAGTTCCTCGAGGCAAGAccaggagaatggtcagacactCAAACAATCAGCTGTCTAATCTAAGGAGGAGATTAGCGAGGAAACCAACAAGAAGATGAGACTAGTGGCtggtgtcttgcgtctgttgatGTTGTCTAAGCGCGTGGCAGGGTGTTTACATCGTGGTTCATTATTCTTGTTCTTCAGAATAATGAACCCCCAAACTGAGTGAGTGAGAGAATGAGAATATTGTGAAGGGTTCAGTATTGAAGAGCTCTGGAGACACACTCTGATCAGATAATCAACTGCAAGAGTCTTCACATGCTCTCAGTCGAGTTCTGGAGGACACACAGTCATGAGGAAGACCTGCGCTGATCCCACAGAATACCAGAGACACCTTGCACAAGGAGTAACGACCCAAAAGactcaaaCCCGGATCATTGTCGTCAACAtagtcagctcctctctgcatctcaagtccgccgacgtacacgacaagctaactggacaaactggttgcagtgggaaagccctccacacggaggtaagcggtcagccggtaagcaccAAAGGAACACCGTCATACCGACCCGTAGAGTTTGATTAAAaactgaaatgcagccatacgtacctccggctacatgattctcg

Function

GO:

id name namespace
GO:0048729 tissue morphogenesis biological_process
GO:0048731 system development biological_process
GO:0048732 gland 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:0048468 cell development biological_process
GO:0035239 tube morphogenesis biological_process
GO:0010628 positive regulation of gene expression biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0072359 circulatory system development biological_process
GO:0002009 morphogenesis of an epithelium biological_process
GO:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006928 movement of cell or subcellular component biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0043009 chordate embryonic development biological_process
GO:0035270 endocrine system development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0030154 cell differentiation biological_process
GO:0048513 animal organ development biological_process
GO:0003143 embryonic heart tube morphogenesis biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0031016 pancreas development biological_process
GO:0001501 skeletal system development biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0007275 multicellular organism development biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0009891 positive regulation of biosynthetic process biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0031323 regulation of cellular metabolic process biological_process
GO:0060429 epithelium development biological_process
GO:0035050 embryonic heart tube development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0031328 positive regulation of cellular biosynthetic process biological_process
GO:0048562 embryonic organ morphogenesis biological_process
GO:0048568 embryonic organ development biological_process
GO:1902680 positive regulation of RNA biosynthetic process biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0048856 anatomical structure development biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0051254 positive regulation of RNA metabolic process biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:1903508 positive regulation of nucleic acid-templated transcription biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0010468 regulation of gene expression biological_process
GO:0048869 cellular developmental process biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0001568 blood vessel development biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0009954 proximal/distal pattern formation biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0007368 determination of left/right symmetry biological_process
GO:0040011 locomotion biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0003007 heart morphogenesis biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0050794 regulation of cellular process biological_process
GO:0007399 nervous system development biological_process
GO:0030878 thyroid gland development biological_process
GO:0032501 multicellular organismal process biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032502 developmental process biological_process
GO:0045935 positive regulation of nucleobase-containing compound metabolic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II 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:0010557 positive regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0007420 brain development biological_process
GO:0048384 retinoic acid receptor signaling pathway biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0030902 hindbrain development biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0048699 generation of neurons biological_process
GO:0060562 epithelial tube morphogenesis biological_process
GO:0001944 vasculature development biological_process
GO:0001947 heart looping biological_process
GO:0048704 embryonic skeletal system morphogenesis biological_process
GO:0048705 skeletal system morphogenesis biological_process
GO:0048706 embryonic skeletal system development biological_process
GO:0060322 head development biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0061371 determination of heart left/right asymmetry biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0005488 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_00056085 lncRNA downstream 48429 40497817 ~ 40503730 (-) True XLOC_029002
TCONS_00058276 lncRNA downstream 50404 40497817 ~ 40501755 (-) False XLOC_029002
TCONS_00056084 lncRNA downstream 55019 40488564 ~ 40497140 (-) True XLOC_029001
TCONS_00058275 lncRNA downstream 532456 40018973 ~ 40019703 (-) True XLOC_028998
TCONS_00058274 lncRNA downstream 543284 40006495 ~ 40008875 (-) False XLOC_028997
TCONS_00058278 lncRNA upstream 113120 40711862 ~ 40937754 (-) True XLOC_029006
TCONS_00057391 lncRNA upstream 158101 40756843 ~ 40757716 (-) True XLOC_029007
TCONS_00057392 lncRNA upstream 227080 40825822 ~ 40828360 (-) False XLOC_029008
TCONS_00058279 lncRNA upstream 227132 40825874 ~ 40827847 (-) True XLOC_029008
TCONS_00057393 lncRNA upstream 247834 40846576 ~ 40847561 (-) True XLOC_029009
TCONS_00056087 mRNA downstream 15650 40526014 ~ 40536509 (-) True XLOC_029003
TCONS_00056086 mRNA downstream 16114 40525075 ~ 40536045 (-) False XLOC_029003
TCONS_00056083 mRNA downstream 144306 40402017 ~ 40407853 (-) True XLOC_029000
TCONS_00056081 mRNA downstream 187270 40357513 ~ 40364889 (-) False XLOC_028999
TCONS_00056082 mRNA downstream 187727 40358119 ~ 40364432 (-) True XLOC_028999
TCONS_00056092 mRNA upstream 247741 40846483 ~ 40854534 (-) False XLOC_029009
TCONS_00056093 mRNA upstream 281691 40880433 ~ 40883162 (-) False XLOC_029010
TCONS_00056094 mRNA upstream 281995 40880737 ~ 40882630 (-) True XLOC_029010
TCONS_00056108 mRNA upstream 372657 40971399 ~ 40972176 (-) False XLOC_029024
TCONS_00056110 mRNA upstream 458950 41057692 ~ 41064494 (-) False XLOC_029026
TCONS_00056071 other downstream 1082450 39451635 ~ 39469709 (-) True XLOC_028992
TCONS_00056068 other downstream 1187944 39364038 ~ 39364215 (-) True XLOC_028989
TCONS_00056067 other downstream 1194374 39357666 ~ 39357785 (-) True XLOC_028988
TCONS_00056047 other downstream 2204939 38335552 ~ 38347220 (-) False XLOC_028976
TCONS_00056041 other downstream 2314455 38237604 ~ 38237704 (-) True XLOC_028973
TCONS_00056095 other upstream 299115 40897857 ~ 40897963 (-) True XLOC_029011
TCONS_00056096 other upstream 299642 40898384 ~ 40898490 (-) True XLOC_029012
TCONS_00056097 other upstream 307026 40905768 ~ 40905874 (-) True XLOC_029013
TCONS_00056098 other upstream 308613 40907355 ~ 40907461 (-) True XLOC_029014
TCONS_00056099 other upstream 313121 40911863 ~ 40911969 (-) True XLOC_029015

Expression Profile

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