RNA id: TCONS_00052815


Basic Information

Item Value
RNA id TCONS_00052815
length 5590
lncRNA type inter_gene
GC content 0.40
exon number 1
gene id XLOC_025814
representative True

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 57981258 ~ 57986847 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

acaggcagtgtgaaggtatttcccttgtacagtctaaccgatctacttctactttattttaacaatttatttggaccgtttattcttttcttgttcacaatcacagatattttagtgacagtttctgaacttgtctgagtttaataCATATGAGAGATTgctgcacattcactaacgttacacatctataatgatatactgtattcaaacagcaataaatttagttaaataaacatgcttatataaagtgtagtgcaattataaatacccctttattaaccataggatgttaaacagaaacggtagaacgtgatgacgtcaatGATATGCAAATTAACGTATGACGTACCCCATctcttcccccccccccccccccccccaatcatcagggggccccgtcagcgatccctgcaggggggcctccgcattttgcgctacgccactgctcgtatccctcctaatgcttattggGCTCATCTGTCTTCGAGCtgagggctctctcccgggacagcatgccaaacttgctaaaatagtcaagcattatctaagtgtgaactcttgaaatggttcATATTGCCCTACAAAGTCAAAGTGCAGCAACTGCAGAAACACTAAAGCTGAGAAAatgcctttaaaatgttttagaccAGCCAGCCAAACATGTTACTTGGAATATTCGTGGTTTTGTTTCTCTTACAAGACCATATCGACTTTGTCACAATGCAGAACATATTTTAGGCCTTGACTTAGTTTTGACAAGCTGTGTAGTTACAGCCCTTTAAACAGCATTCTATTATAccttaaatgtacatttatgtaCCCATTACCTTGCATCGTAACTGTCTGGTTGACCTTTTGTCCATAGGTTATCATTAAAAcaagtacctttatttctgagagattATAATGTCTATCTTAAAGTGTCTCAAAGGAATTTAGGAGTCAAAATCTCTTATTCTGACACAGTGACTATtgtaaattagaaaaataatattgtgtCGTCTGAACCTGACATAAACCCATCCTTGTTAATGAAGTATCTCTAActtatttaaagctaaaatgtGTCACCATAATAATAAATCTGTCATCATCTACTTTTTACAATGccgtattatttattttaatcagtaaACTCTAACTTCTGAAGAATGCCCAAGCTTTCGTTTTTGTGTATGGTCATTTATACTtgcaaaagacagaaaaaaaattaacggTGTGATAGTAAACATTACTTTGAGACATTTAGTTGCTCTACTGGTACTCCATAGCTCTCATTCTCAGTTGTGGTCAATTGAGGACACAACAATCAATGGCGACAATAAAGCGACATGCATGAAACAATTTTAAACTATTGACACTTACAGTATGACTAGTTTCCACTGATCACTGCAGTTTAGTAGGGTACAGTGTGCagcttttctgtttccactgtcTAAAAGTACCTCTTTTTGGAAAACCTTTTGTAAGGGTATCTTGAACAACATTACGGTagcaaaaggtggagctagactcAATGCTGAATGCTATTGTATAACAGAAGCGTCACTTGTGCATGCAACAAGACAAGCAAAAGACAAGCCTGATCAGGGTGACCTGTACTGAACCGTCATTATGGTTCCTTTCCATTGAGCATTATGGTTCAGTAAAATACAGTAGATTACAGTGTGCATTTATTTCCAGTTTCTCTTTAAAAAGTACCAAAACAGCCACTTTTTTTGAGATCCTTTAGGAAGGTTACCTACAACAGTACAGTACCAAAAGGTTGATGGCTTGCAGCAATGAAccatggtcgacctgagctcaaacaaaactTGTCTCTTCTTGTGACAAACAGCCACATGCCAATAATATGTGAATATCTTATTTAAGCCAAAATGGAGTCGATCTCAACTTTCAGGCATAAAAACTGCCTACCAAGTAAAGACCAACTTATATTTTTGCTTCTAGTCCTCGCTATAGGTATGCCTTCACACAGTTGTAAATCCTTTGCCATACCCAGACACAAACCTCTCAAAAAAGGTAACTACACATTTGCCACAATTCAAAGCGCAAGATGTGTGATTGTAGTGGTAACAACTATAGGTGGGTTGAGTGGTGCTAGTGGAACACGGCGGGTGGCTTGAGGTTTTAAGAAGTCTGAGTTTACATGATTGTCCAATCATTTTCGATTCATCATCCTTCCACCACTCCGACTCCGCACCTTTAACAGATCATTTCTCTTGCCCAGGGAGGAATGGGGGAACTTTTCTGGGAGTTTTTCTGGGAGTTTTCTGACTAGTGTTACCCAATTCTAGTCCTCGGGACTCCCCGCCCagacctgattcagatcatcagttcATTAACAGAGTTCCATGAACGGATTCTTGTGTGTAAAATAaaagacatacaaaatgtgccTGGCGGGGAATCTCGAGAACCGCAATTGACAACCGCTATTTTGGACAAAGTAGTTGATTGAGTCTTTTCGAACTCAGAGCCCAGACTCAGAGACTGCAcaccaaaacagatttttttcctTAAATCTGCAGGTTTGAACTTGTAAAAGAATGATTGCAGTGTAACACAGACAGAATGCAGAAGTATGCTTAGAATTGGCTACATCAGGGGTGCCCTAACTTCTAGAggactggtgtcctgcaaagtttagttcccaccccaaatagacacacctgggctagctaatcaagctctgttTAAGCTTACTAAAAACATTCGTgatggtgtgttgaggcaagttggagcaaaaatctgtaggacaccaggcctccaggaccgagtttgggcaacTATGGGCTACGTGCAAGGTATTTACCTTAGTACAgtgatcacttgatgcagaagtgtaaatcaaGCTTATGGGTATGCTACGGCCCAAACTCAAAACTGGCTCGAATAACAAAAACATTCAAGGTTTGAGCCGAATATATGGAAGACACAGACGTTTGAATGGTTAAATTGATGTTCTGTCAATATGTTTAATTTTCCATAAATCATAAGTTTTCAAAAgagacaaaacattaacaaaaatcaagTAGAAAGGTAGGGCAGCTAAGGTAAACAGGTCTCTGACTAAACTGTTTTAAATGGACAGATCTTACCTAAACTCCcgtgaaaggaataaaaataggtgagtcttccgggccactgcttaccttcgctaaactaaataaataacaaaacgtgaCTATGAAAAATAAACCTCTACCTGCTACAAagcaaagtatcaaaataaacaaactagttaACACATTATGAATTAAGAATCAAAAGATTAACAGGAACAAAACACTAAAAGGAGCGGCATCTAGATGAATGACCGCCGGGCTTGCGGAGGACCGCCAGCCAGACCGCCTGAGCCCAAGCCACCACCGAGCTGAGGTAGGGCGAGAGACTGCAAGACaaaaggagagagagacagagacgccATTGTTGTCAGCGTTATATAGTGGGAATCCCCAATGACGTCACGGGCATCATCCAATCCTGGATAAGCCGGGTGAAACACTCCTCCTAGAACTCAATCGCAAGCACAAACCGGCaattaataaatagattaattaaataacacagacctACATAACAGGGTACAATTGGCAGTGGAATAGCAAGCCTGATCAGGGTGACCCGTACCGAACCATACTGTCCTAAACTGAACTGCACTCCTTAGTGTAAACAAGACGTTAAAGTCACAATGCAGAAAAAAGGCCAGGGGTGCccagccctgttcctggagatctaccttcctgcagatttcaccTGGaatccttatcaaacacacctgtctttaattaccaagcGCTCTTTCAGAACCtacttagttggtttagttgtgtttgatcagagttggagctaaaTGCTGCATGAAAAGGGTTCAGCACCATTAAGCACCCCTGGcatagaccagtgtttctcaactacgTTCCTAAAGGACCAACAACACTTCGTCCTGTTCTAGGCCTTTTACCTAGTGTACCTTTTCgatgtcttctttgtctgtcacacctattACAGCTCTTTCAATCTCagctaatgatctgaatcaggtgtgttcaGCTTAGGAGACAAAAAGCGTGCAGacctggtggtcctccaggaatgtggttgagaaacgctGGCATAGACTGATCAAGACGGAAGACAGATGATTGGACAGGGTTGAGAATGTTAAATtacatgaaggtgagtaaatgccctgctgaaaaatccagcttaaaccagcctaggatggttgggtggttttagctggtcaatcagcctggttttagagggggtttggccatttccaggctggtttccagctatttccagcctggtcttagctggtcaggctggaaagtgaccagctaaaaccatctaaaaccagtttgaccatcctggtttaagctggacatagctggttttggctgggctcccagcctggctaggctggtgaagctagttttagctagtcatctcccagcctgtccagctaaaaccaggctggaaatggctggaaactagccaggaagtggccaaaacccctctaaaacctggactggtcgaccagctaaaacaagccaaccatccaaggctggtttaagctggatttttcagcagggtgatgCCAGAACTAATTGTATACATTTATAACACTATGCTAAATGCTAATTCCACTTAGTCACATTCCAGGCACACAATATCCTGATGTGACCCTGCAACTCAGGTTAGGGTGTACCATTTTGGTGTGTACCTTAAGTTGAACTCTGTATTAAAGGGGGAATTCACTCATATTCAACTGTGCAGAAAGCTCGGTGCATGTTTCTCTTAGTAACACGATGGTACAATAAGCAACACTGTATGAGTGAAATTCCACTTCACGTAATAAACCATTGTACTGACATGAAAGTAAGGCAAGGATTGAAAGAAGGATGATTCTATCAATGCAAATTCAGACTCGATTGGGAGTTGGTTACTGTGTGCATGTATGTTTAGGTTTAGAAGCTCGCTCTTTTGAGGGTACTTTTGTCAGATGAAGACTCTAGACTGTTCAAATATTTAATAGAAAATGACTTCTTAATATAAGTTGTATGAAGctgttttatgaatatttttaaaaatgataaaaaaataaccaaGACAAGAAAACCACAGAGATGTGAAGGTATTACTAATTACTATTTTCATCTGTAACATACTTTTAAAACCGAAAACTCAGTCTACATTGCATATTTATTGTTATGTAAATCATATTTATAATGCTGTTTTCACAGAGAAGTGATTCTTTGTACATTGTAAATAGTTCTGTTTCTTGTGTTGATTGCATGTACGTGTCCCTGAGAGAACACATTACAGTTATTCCAAAGAAATGTTCGGTATTGCCTTTTCATTTTATGACATGTTTAATCTCCAAAGCTGAAGTATCCTTCCTCAgcatatccagcctgatctcacgagaaaacagaagtattttacgttttgccagtttagtggctaatataAATATACGAATTTGTAcaatttcagtcgtacgaaatgatacgatttttaaaaggaggcgtggcacctaaccccacccctaaccccaaccgtcgttgggggatgagcaaat

Function

GO:

id name namespace
GO:0001704 formation of primary germ layer biological_process
GO:0048729 tissue morphogenesis biological_process
GO:0001706 endoderm formation biological_process
GO:0048731 system development biological_process
GO:0001708 cell fate specification biological_process
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0001711 endodermal cell fate commitment biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0001714 endodermal cell fate specification biological_process
GO:0007492 endoderm development biological_process
GO:0048762 mesenchymal cell differentiation biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0002009 morphogenesis of an epithelium biological_process
GO:0060896 neural plate pattern specification biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0060897 neural plate regionalization 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:0048513 animal organ development biological_process
GO:0003401 axis elongation biological_process
GO:0090036 regulation of protein kinase C signaling biological_process
GO:0003154 BMP signaling pathway involved in determination of left/right symmetry biological_process
GO:0035295 tube development biological_process
GO:0009880 embryonic pattern specification biological_process
GO:0045165 cell fate commitment biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process 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:0048562 embryonic organ morphogenesis biological_process
GO:0048568 embryonic organ development biological_process
GO:1903224 regulation of endodermal cell differentiation biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0010453 regulation of cell fate commitment biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010468 regulation of gene expression biological_process
GO:0010470 regulation of gastrulation biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0060485 mesenchyme development biological_process
GO:0048332 mesoderm morphogenesis biological_process
GO:0007369 gastrulation biological_process
GO:1900094 regulation of transcription from RNA polymerase II promoter involved in determination of left/right symmetry biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0061312 BMP signaling pathway involved in heart development biological_process
GO:1901166 neural crest cell migration involved in autonomic nervous system development biological_process
GO:1903045 neural crest cell migration involved in sympathetic nervous system development biological_process
GO:0060795 cell fate commitment involved in formation of primary germ layer biological_process
GO:0007417 central nervous system development biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0060028 convergent extension involved in axis elongation biological_process
GO:0007420 brain development biological_process
GO:0003303 BMP signaling pathway involved in heart jogging biological_process
GO:0035987 endodermal cell differentiation biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0042659 regulation of cell fate specification biological_process
GO:0072045 convergent extension involved in nephron morphogenesis biological_process
GO:0042663 regulation of endodermal cell fate specification biological_process
GO:1901213 regulation of transcription from RNA polymerase II promoter involved in heart 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:0043565 sequence-specific DNA binding molecular_function
GO:0003690 double-stranded DNA binding 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:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific 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_00052387 lncRNA upstream 212592 57766624 ~ 57768666 (+) True XLOC_025809
TCONS_00052814 lncRNA upstream 340168 57636374 ~ 57641090 (+) False XLOC_025808
TCONS_00052386 lncRNA upstream 340671 57636416 ~ 57640587 (+) True XLOC_025808
TCONS_00052811 lncRNA upstream 500262 57426160 ~ 57480996 (+) True XLOC_025806
TCONS_00052812 lncRNA upstream 544954 57434261 ~ 57436304 (+) False XLOC_025807
TCONS_00052816 lncRNA downstream 7531 57994378 ~ 57995547 (+) True XLOC_025816
TCONS_00052388 lncRNA downstream 150095 58136942 ~ 58137294 (+) True XLOC_025820
TCONS_00050700 lncRNA downstream 187230 58174077 ~ 58180383 (+) True XLOC_025821
TCONS_00052817 lncRNA downstream 201140 58187987 ~ 58192699 (+) True XLOC_025822
TCONS_00052818 lncRNA downstream 201807 58188654 ~ 58193860 (+) True XLOC_025823
TCONS_00050689 mRNA upstream 2068 57948377 ~ 57979190 (+) True XLOC_025813
TCONS_00050687 mRNA upstream 151235 57825938 ~ 57830023 (+) False XLOC_025812
TCONS_00050686 mRNA upstream 157711 57820913 ~ 57823547 (+) True XLOC_025811
TCONS_00050685 mRNA upstream 164381 57797252 ~ 57816877 (+) True XLOC_025810
TCONS_00050683 mRNA upstream 164688 57779673 ~ 57816570 (+) False XLOC_025810
TCONS_00050690 mRNA downstream 4227 57991074 ~ 57991985 (+) True XLOC_025815
TCONS_00050691 mRNA downstream 11133 57997980 ~ 58006138 (+) False XLOC_025817
TCONS_00050693 mRNA downstream 11149 57997996 ~ 58006133 (+) True XLOC_025817
TCONS_00050694 mRNA downstream 105365 58092212 ~ 58097473 (+) True XLOC_025818
TCONS_00050695 mRNA downstream 132724 58119571 ~ 58131524 (+) True XLOC_025819
TCONS_00050688 other upstream 151339 57825939 ~ 57829919 (+) True XLOC_025812
TCONS_00050682 other upstream 341810 57636374 ~ 57639448 (+) False XLOC_025808
TCONS_00050664 other upstream 2497611 55483513 ~ 55483647 (+) True XLOC_025789
TCONS_00050662 other upstream 2682100 55299043 ~ 55299158 (+) True XLOC_025787
TCONS_00050635 other upstream 3913619 54067523 ~ 54067639 (+) True XLOC_025764
TCONS_00050692 other downstream 11143 57997990 ~ 57998559 (+) False XLOC_025817
TCONS_00050699 other downstream 181676 58168523 ~ 58170414 (+) False XLOC_025821
TCONS_00050717 other downstream 715473 58702320 ~ 58710755 (+) True XLOC_025845

Expression Profile

//