XLOC_027239


Basic Information

Item Value
gene id XLOC_027239
gene name NA
gene type non-coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 16309076 ~ 16313899 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00057701
GTTTTAGTAACCATATTGTTTCAAAACataaatggtttgctgcaatcaGTTTTCTTAGTTTGAGTTAACTGTACTTATCTGGGTTTACAGTGTAGCAATCCACATTGTTACCATCATACACTAACAGAAATAgctctctctttttttcattcTCAGGAAAATGAACATTACAATCAATTTGACAAATGGTTTGCACTGGGTTGTCAATCTTGAGGCTAATTTGAACCTTTTGGTATCATTAATGGAATAAAGTAAACTGCACTTCCATTAAAGAATGGCCTCGATGAAACTGGCAATGAATCAAACTGTATTTGTTCCTGATAACGTAGCctaattgaaaaaaatctttataatctcACAGGTTTTATGTGAAGGAAATGGATTGGAATCATTAAGTTCACAAAAGATAACAGataatggccaatttagtttaaatttagctgaaataaatctCACGAAGCCCAGACTGGAACGACTTACCTGCAACCCTAATCACAAGCTAAACCAAATGCACAATCTTCAGATAAGATAAGAGATatgtaactcacattttcaaataaGAGCTTATCCTGGTCACTGTTCTTGGCTGTCTAAAAGTGGGAGAAAATAGGTGTGATGGATGACCGAGGGACAGACAGGGCTTCCCATGAGGCCAAGCTGGTGTCTAATCAATAGACTAGCAGTGCGGCCTGGCTGGAGGGCTTCATATCAATCATAATGCACAAGCCTCGTATTCTGTCCTCATCTCAGTGACAGCACACACTTGGCCGGGGACGAGCCGTCTCATCTATTACTCTTGGCAGATGGACCACAGGCAACTGAGCGGACACAAAGGGCTGTCAGAATGGGAGAATCTCTCACTATAGGAAGAAATTTAAAGTTTAGCCCATTACACTGAAGAGCGAGTTGAGAAACACCGAGAAATAGAGCCAGACCTTGCCTTGTAGGAGCTCCTTCATTCCTTCCAGGAACAAAGGTGTGTGTCCTCATCCTGTGTGTAATTTGAGAGGTTTGTCCTGCCCGGCTCGCCTTAATGTTCAACAGTGATGGTCCTAAAACTCCATGGGCCCCAATTGTGCAAGACAATCAAAAAACCCCTCCTCCCAACTCAAAACAGTATAAACAGTGAGATGAAAGTCGATCTCagcattttaaatgtactttcatcaaacatctaaacaatagttttggtACCAGATGCACTGGGCTCACAAATAGTagcatatacatttaaaatggatCAAAAATCAGTCACCTTAAATCTACTGAACaaatttttgatccacttcaaatgtttacTACTGTACAGACAACTACAgacttaatttaaaatgaactaaaatccaaagtaaagtgtataatgtacatttaaagtgttttaaaagcttagtttcaatttcaattcaatttcaattctTCTTCAGTACgccagtgtatttatttattttaataaagttacaTTACTCAATTACAAACCATCACTCCTAAACATTTGCACAATCCCCCTTACAAAAAAACCCACACCACATAGAAAAAATGTGATTAATAGTAAAACAGGATGTCTGCAAATATGTTTTTTCAAATATAGTATAATGAAGCTCAAAACAACAAcgcataaacaaacaacaaatgaacacaaaatatcagaTTTAAGTTTTAATAGTAAACACAAGCTTAGGCATTTAATACAAtcaatatttacaaattatttctCAAAATATAACTCATACTACAGGAGCTCTGAGTGCACTTGTCAATTCACATTCAAGTATTACCACAGTTACCCAGCAGTGGTGACCAGGCAGCCATGTGGCTTTGTCCCAAGGCTCTGAGTGGGTTGCACAGACCGCTTAGATCCATCGAGGAAGGTCGGCAACCTGTAAAAGTCTCTCAAAACACACATGCATCCGTTGGCAGAACAATGCATGCACACTTCTCACAAATTACACTGCGACAGTATGTGACTGCAAACGCTCTTACACCGCGTACACAATGAGTGGAGCGGGTTTACCTGCTGGCCACGTGCTGGTGGGCGTGGCTTACACGTCATCGCGCAGCTGTGACGCAGAGCGTTCCGTCTCCCCGAGTTGGAGTCTGCGCAATGCTGTGGGACAAGGAGAGCCGACAAAATGAAACCACATTCAACTCTCAATAAGCATCTCAAACATTTTGCGTTCAACGCCTTGGTTTCAATAAAACACTGTTCGATATTATTTTACAGGGCTAACCATTAAAACAACACGCACATATTACGGTCTATGCGTTCACAGCTGCCCGGTCTTCTCTTTCCGACGAGATCAAGTCAGGTTTCAGGGGAAACACCTCAGATTTCATTCCTGAAGAACAGCTCCTCGAAGTCTCGCTGCTGGAAGTCCAGCGATCTTTCGTAATCAGAGTCCGACGATGAGAAATGCCTTTCATTAAATGGCGTACGACTCACACCACACTCCTCTATCGAAACATCTAGCCGCTCTGCATACTCAATGTCCATTAAGTACTGCGTGGTGTTTCTTGGTGCCATGGCTACAGACGGTACAAATCTCTGATCGCCCGCAGCTGCTCTTTCGACACGGCCTGGGCTGAGCTGCGGTCTCCTGGATGACCAGGCCCGGACGCGTACCCTTCTTTCGTCGACTTTTGCTTGAAGAATTGTCCTTTTCTTTGATTTTGACCATTTCTGTTTATGATCAGGCGCGGTCTTGATGTCCTTCTGGTAGCTTTTCTTCATAGTGATGATTTCAGGACACATTACCCCCAAAAAAGTATTTGGTTGTACAAAAGAGCTATAAAAATTAGCGAGAGTTAAAGCAGAATAAAAAAGGCCTCTTGTATTCCTAAACAAAAAGACTTCGACCAAGGACGGAAGTTTCAGCTGTTGTCTCTTCAACGATCGTAAGAAAAACGTGGCTAAAAACGTCTGTCTCACGTACTCATAAGAAACTTGCGGATGTGACGTTTATCGCCGGCAGCGAATCAGCTTTCACCTCTTCTTTTTAGGCGGTGCTGAGCGGGGTTTGAAAC

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:0048762 mesenchymal 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:0043009 chordate embryonic development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0003146 heart jogging biological_process
GO:0003154 BMP signaling pathway involved in determination of left/right symmetry biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:2000223 regulation of BMP signaling pathway involved in heart jogging biological_process
GO:1901576 organic substance biosynthetic process 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:0035050 embryonic heart tube development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:1905330 regulation of morphogenesis of an epithelium biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0048568 embryonic organ development biological_process
GO:0030509 BMP signaling pathway 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:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0010468 regulation of gene expression biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:2000826 regulation of heart morphogenesis biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0060485 mesenchyme development biological_process
GO:0044271 cellular nitrogen compound biosynthetic process 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:0003007 heart morphogenesis biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0061053 somite development biological_process
GO:0061311 cell surface receptor signaling pathway involved in heart development biological_process
GO:0050794 regulation of cellular process biological_process
GO:0061312 BMP signaling pathway involved in heart development biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032774 RNA biosynthetic 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:0003303 BMP signaling pathway involved in heart jogging biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0060562 epithelial tube morphogenesis biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0071772 response to BMP biological_process
GO:0071773 cellular response to BMP stimulus biological_process
GO:1901213 regulation of transcription from RNA polymerase II promoter involved in heart 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:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003690 double-stranded DNA 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:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific 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
ko03070 Bacterial secretion system
ko05164 Influenza A
ko03200 Viral proteins

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00057701 True 3021 lncRNA 0.41 2 16309076 16313899

Neighbor

gene id symbol gene type direction distance location
XLOC_027238 NA coding upstream 97209 16190326 ~ 16211867 (+)
XLOC_027237 NA coding upstream 235370 16037168 ~ 16073706 (+)
XLOC_027236 NA coding upstream 285701 16008223 ~ 16023375 (+)
XLOC_027235 CR749763.5 coding upstream 304651 16001238 ~ 16004425 (+)
XLOC_027234 copg2 coding upstream 312885 15983541 ~ 15996191 (+)
XLOC_027240 si:dkeyp-38g8.5 coding downstream 1793 16315692 ~ 16319762 (+)
XLOC_027241 BX322608.1 coding downstream 10071 16323970 ~ 16347126 (+)
XLOC_027242 NA coding downstream 60370 16374269 ~ 16374692 (+)
XLOC_027243 NA coding downstream 221359 16535258 ~ 16538962 (+)
XLOC_027244 pkp2 coding downstream 396102 16710001 ~ 16725144 (+)
XLOC_027228 NA non-coding upstream 427932 15869212 ~ 15881144 (+)
XLOC_027246 NA non-coding downstream 436357 16750256 ~ 16758036 (+)
XLOC_027247 NA non-coding downstream 438462 16752361 ~ 16753296 (+)
XLOC_027254 NA non-coding downstream 525654 16839553 ~ 16844705 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) G111173 NA unknown CI01000020 null 2445064 ~ 2449807 (+)