RNA id: TCONS_00042041


Basic Information

Item Value
RNA id TCONS_00042041
length 2055
lncRNA type inter_gene
GC content 0.33
exon number 1
gene id XLOC_020140
representative False

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 7025462 ~ 7027516 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCGCTTGCGCTGACGATGAGAAGGGTAATCCTGCACAACTGGAGTGGCTGCACTCTcaggaccgcatttttaggaccGCATCTTTAGGACCCTAGTTTTTTGTGACAGCGTTACCTGTCGGATTGGATCATGGATGCGCTAATGGACGACACGGATGACAAGGAAAGTGTAAGTACCGATTTttctattaagttttattttaaactgttaaagtatgtgtttattttgtaatgctgCTGTTTTATACTGTGAGTTTATGCAGAAATGCCAGATTAGCCTGCATGATTTACCCCACTTTTAAGGGTCTGGGACAAAAATGTTACGTGAcgattttttttccagaagaagaataaaatattataataataaatatggatAATTTTACACAGCCAGAGTGAGAGCTGCTATAACTGTTAATAATTttctagagttcgttttctagTTTGATTATACGTCGTTCGTAACTCGTGACCATGGTTTAATGAAACATTGTTGATTTAATGGCTTGTTGACTTAACGGCTAATGTGCTTAGTGACATGCATTAAACTAAGATGGTAAAAGCACGTTTGATGTAAGAGTTTTAGATTTATCTATATTTTACTGAATTCGTGTTATTCGTTGTATTACATTAGCACATTAAAAATTGTGCTGACTGCCTGTTTGCCCCACAATACTGTATGTGTTATTAGCCTGATGTTTTGTCATCGTTTTACAGTGATGAATGAGATTCTGAAAGTTAGGCTTATTCTGCAGGTCTTAACCATATAGAGTCTCATATCTTTAATTTATATCAGGTATGTTTTACCTGGCGAAAAAGAAGTGATGGCCAATATGATTGGATTGCTTAGGCTCATTGTAggaggaaaagaaaacaaactacagGAATATTTTCATTGAGGTTATCTCAAACTGttgagtaacactttataacatctgcatactataaataaataattattaagcatttaataactagttaatttattaatattttatttgtttagcattaactctacatttaatagacattgataagcagtttataaatacagttacaaATGCTAGCTGTGTTCTTGAGTTTATAGCATATCTATGATGAAGTGCAGATTATCTGTGGTGTTCATTTTCCAGAGGAATGTCTGGCCAAATAAGTATATAAACTGCATGCTGGGTGCTACTCATTTATGAATCCATGTAAAATGATTTGCTGTTCTGTGGTGGTATTTTAGTtcatatttaatgatttttttttcaaaggccATCGTACATCCTCTGGGTGTCTTGAGGAGCTGGTCTTTGGATGATGCTGAGCAGGTCTTTCTTTCTGGTAAAGATTATCATTACAGGTCAGAATATGGTTAATTTTGCACAATGCTCAAAGAGCCTTTTTGTTACTGGTATATATGTTAACTCAACAGTGGATTTGCTttttttagtgtttggactttcagcagtgaatactaaaccacactgaactgaactgaatttaataaatgttaagctgctttgacacaatctacattgtaaaagtgctttagaaataaagataaaattaattgaaattgaattgaatattcaacacatttccatttttctcagaaaacatatttataaaggtgctgttgacttgaaattttcaccagatgttgataacaatttgtaaagtaattagatttgttttctattcatatatattttttctttggttttcaggtcaatagcacctttagaaatatgttttctgagaaaaatgggaacttgttgaatacttatttaccccagtgtgtatgtatatatatatgtatgtatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatttatatgtatgtatttatgtatgtatatatgtatgtatatgtgtgtatatatatatatacttgaactTTCttcttcactctcattcacaggaGCTAAAGTCTACAGCCAGTCTGAATGCAGCAACTGAATAAACAGTGGAGTCATTTTTGtggttgaattgcattaataaaaataaaagtgtggatatttatataaatgtaca

Function

GO:

id name namespace
GO:0042692 muscle cell differentiation biological_process
GO:0048731 system 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:0048741 skeletal muscle fiber development biological_process
GO:0048747 muscle fiber development biological_process
GO:0010628 positive regulation of gene expression biological_process
GO:0021546 rhombomere development biological_process
GO:0051146 striated muscle cell differentiation 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:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0001756 somitogenesis biological_process
GO:0007517 muscle organ development biological_process
GO:0043009 chordate embryonic development biological_process
GO:0007519 skeletal muscle tissue 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:0035282 segmentation biological_process
GO:0055001 muscle cell development biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0021593 rhombomere morphogenesis biological_process
GO:0021594 rhombomere formation biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0009880 embryonic pattern specification 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:0097659 nucleic acid-templated transcription biological_process
GO:0031323 regulation of cellular metabolic process biological_process
GO:0060429 epithelium development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0048562 embryonic organ morphogenesis biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0014904 myotube cell development biological_process
GO:1901861 regulation of muscle tissue development 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:0006725 cellular aromatic compound metabolic process biological_process
GO:0051254 positive regulation of RNA metabolic process biological_process
GO:0016202 regulation of striated muscle tissue development 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: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:0044238 primary metabolic process biological_process
GO:0048869 cellular developmental process biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0048634 regulation of muscle organ development biological_process
GO:0048641 regulation of skeletal muscle tissue development biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0000578 embryonic axis specification biological_process
GO:0007389 pattern specification process biological_process
GO:0061053 somite development biological_process
GO:0050794 regulation of cellular process biological_process
GO:0006807 nitrogen compound metabolic process biological_process
GO:0061061 muscle structure 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:0060537 muscle tissue development biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0060538 skeletal muscle organ development biological_process
GO:0034641 cellular nitrogen compound metabolic 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:0034645 cellular macromolecule biosynthetic process biological_process
GO:0007420 brain development biological_process
GO:0032525 somite rostral/caudal axis specification biological_process
GO:0014706 striated muscle tissue development 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:0046483 heterocycle metabolic process 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:0005634 nucleus cellular_component
GO:0043231 intracellular membrane-bounded organelle 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_00042033 lncRNA upstream 55418 6831773 ~ 6970044 (+) False XLOC_020132
TCONS_00042039 lncRNA upstream 55418 6954264 ~ 6970044 (+) False XLOC_020132
TCONS_00042035 lncRNA upstream 58926 6882310 ~ 6966536 (+) False XLOC_020132
TCONS_00042040 lncRNA upstream 58926 6956394 ~ 6966536 (+) True XLOC_020132
TCONS_00042038 lncRNA upstream 75938 6943909 ~ 6949524 (+) True XLOC_020139
TCONS_00042042 lncRNA downstream 5732 7033248 ~ 7067789 (+) False XLOC_020141
TCONS_00040104 lncRNA downstream 5865 7033381 ~ 7067789 (+) True XLOC_020141
TCONS_00042043 lncRNA downstream 412011 7439527 ~ 7444205 (+) False XLOC_020142
TCONS_00041874 lncRNA downstream 424657 7452173 ~ 7452420 (+) True XLOC_020143
TCONS_00042044 lncRNA downstream 518308 7545824 ~ 7556620 (+) True XLOC_020149
TCONS_00040102 mRNA upstream 110905 6905210 ~ 6914557 (+) True XLOC_020138
TCONS_00040101 mRNA upstream 131434 6892296 ~ 6894028 (+) True XLOC_020137
TCONS_00040100 mRNA upstream 166024 6858787 ~ 6859438 (+) True XLOC_020134
TCONS_00040099 mRNA upstream 170506 6843363 ~ 6854956 (+) True XLOC_020133
TCONS_00040098 mRNA upstream 266443 6757741 ~ 6759019 (+) True XLOC_020130
TCONS_00040105 mRNA downstream 411670 7439186 ~ 7447391 (+) False XLOC_020142
TCONS_00040106 mRNA downstream 411960 7439476 ~ 7444514 (+) False XLOC_020142
TCONS_00040107 mRNA downstream 411998 7439514 ~ 7442591 (+) False XLOC_020142
TCONS_00040111 mRNA downstream 435481 7462997 ~ 7470338 (+) True XLOC_020144
TCONS_00040112 mRNA downstream 444904 7472420 ~ 7476352 (+) True XLOC_020145
TCONS_00040103 other upstream 76956 6943403 ~ 6948506 (+) False XLOC_020139
TCONS_00040089 other upstream 448522 6571847 ~ 6576940 (+) True XLOC_020123
TCONS_00040079 other upstream 735112 6290234 ~ 6290350 (+) True XLOC_020115
TCONS_00040065 other upstream 1213008 5810877 ~ 5812454 (+) True XLOC_020101
TCONS_00040051 other upstream 1717888 5307485 ~ 5307574 (+) True XLOC_020090
TCONS_00040108 other downstream 412011 7439527 ~ 7444022 (+) False XLOC_020142
TCONS_00040109 other downstream 415799 7443315 ~ 7444045 (+) False XLOC_020142
TCONS_00040110 other downstream 416083 7443599 ~ 7444205 (+) True XLOC_020142
TCONS_00040122 other downstream 1238017 8265533 ~ 8265649 (+) True XLOC_020159
TCONS_00040135 other downstream 1667580 8695096 ~ 8699233 (+) False XLOC_020176

Expression Profile

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