XLOC_029299 (BX546503.1)


Basic Information

Item Value
gene id XLOC_029299
gene name BX546503.1
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 55258968 ~ 55268396 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00056465
atggcgtttataaAAGAGGAGAGTGaggatgtgaagattgaagaaacattcacagtcaaacaggaagctctgcaggaacaaacaggttggttttcattctcaaagaccaactcagtcatttgatcctcattcagatatattttaataataagaatactaaattaaatccatcttgcggccctgagtgtgctgcctagttctcctaaacgcacataagcactcattgaaagacaggaatgaatttctttcttgctttacttgttctcgtgtctttggtcattattttatgtattattagtctcccattttctctaccttcttaaggttgttgcttttcttgttctcctactgtttgtaaggtgtccttgagcacTAAAAACGTCCTTGGGCACTAATGtcgttttaaaatgattattgaaCAAATCCTTATATTTGCGTGTCACACTCACTATACAAATTTATCAGGACTTACTGAAAATGGAAAGGATtggaaggacatttgctgtgCTCTATCATTGATAGGGAAAAGGACACTCTTTGCTAGATTGAATTTGTCTCCAGAAGCATTTACAAATCCTGAAATTATTGTAAGAGCTTTTGAAATGCATGCATCTAGATTTGACAGAAAAAGAAGATCATCCGCATTTAGCTGGAAATTATGCTTGTGTCCCTCTCTGAAAATTCCTTGCAAGCCATCTGAGTTCCTTAATACAGTTGCAAGAGGTTCGATGGCAATGTCAAAGAACAGAGGGCAGCCCTGTCTCGTTCTTCTAGAGAGTGGAAAGCCtttagaaataatattatttgtttgaatGGATGCTTGGGGCCTAGAATATAACATTTTAACCAAGGAACAGAATCCAGGATcaaaaccaattttttttaaGCGCTGTAAAAAAATAGATCTACTCTATTCTATCAAATGCCTTATGGGCATCTAAGGAAAGAGTGATTCCGAAACAAGAGCTTCAGCAAATACCTTGCTCAACAGGGGTGTTAGCTTGGCagtaaacttcttataaaactcgGATGGGAAGCCATTGGGGCCTGGTGCTTTTCCggttttcaattttatttcataAGGTGTTAAATTTCCTTCTAATGCCAACTAATCTAAATCACAGAGGGATGGttattctaaataataaaaaaaaaactcaatacgTTCAATCTTGTTTACCTCAGAGCTGTAAAGAGttttatagaagtttttaaattgatcATTAATTCTCTGTTGATTAGTAATAATACTGCCATCATCCTTCCTAACTGCTGTTATAAAaccagctgctgaggattgtgtcagttggtaacacaataacctgccagCTCATTTCCCATGTTCACAATGAATCTAGCGTGATCTTATGTGGAGATCCTCGATATTTTCATCTGTCAGGGAGTCATATTCCTCTTGCAGAAGGAGTCTTTTCTTATGGAGCTCTTCGGAAGGTGATGTTGAGAGTAGCTgatcaattgtattaattttatttataatctctGTAAGTCGTTTTGACTTTcactatttaaattttaattgcaCTAGCTTAATCTAAAATTTGTCCTCATATATATGTTTCTGAGTATCCCATAGGATGCTATAACTTATCTCTGGGGATTCCTTTGTCTTAAGGAAGAAATCAATTTGAGCATCAATAAATTTTAAGAAATCGTCGTCTGCCAAGAGTCTTGAGTTAAACCGCCATGTACGTTGTGGGATTACATTGCCTGGAAAACATAGTTTTAGTGAGACTGGACATTAGTCCGAAATAACAATACTACCATACTCTAATTCTGACATTAAGGGAAGTAACTGCTTGTCCAGGAGAAAATGGTCAATCCTGGAAAAGGTTTGATGCACTGGTGAATAGAGGGAAAATTGCTTGGAAGGTGGATATTTAAATCTTCAGGGGTCACTTACACTAAGTCTGAAGAAAGGAGTTGATACATTGTGCTGGCTAACTTAATGAATTACTCAAAGAGCTAGAGCGGTCCAAAATTGGGTGCAAAACAATTTAAATCACCTCCTAAGAGACTaggcaaaattgaaaataaatctttttcattgtttttcattGTCTACAGACACTACAGGACTACAGACATGTTAAAAAGTTTACCTTGGATTATTATGTATCTGCCATTTTTATCCAACACATTTGACTccaaaacaaaatgtacatttttatgtatatgtacaTAACGCCGCTACTTTTGCTATTGAAGTTAGAATGATATATTTGTGTATACCTTCCTCTATTAAGTTTAGAATAGTCATTTTTCATCAGATGTGTCTCCTGTGAAtatacaatatcagatttttactTATTAAAATGTGCGAACACCTTGTTTTGTTTCACTGGGTGATGTCAAAACGGAGGGCTATCGAAAACATTTATCAGTAGCATCTAAAAGGAATCTGTGGGTTTTGTATGTAGGGGATGTGtgggggagagaggaaaaaa

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:0065007 biological regulation biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0001756 somitogenesis biological_process
GO:0043009 chordate embryonic development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0035282 segmentation 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: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: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:0051254 positive regulation of RNA 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:0010468 regulation of gene expression 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:0060485 mesenchyme development biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0061053 somite development biological_process
GO:0050794 regulation of cellular process biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0045935 positive regulation of nucleobase-containing compound metabolic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0034641 cellular nitrogen compound metabolic 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:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0046483 heterocycle metabolic process 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: NA

Ensembl:

ensembl_id ENSDARG00000103536

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00056465 True 2465 lncRNA 0.36 3 55258968 55268396
Loading

Neighbor

gene id symbol gene type direction distance location
XLOC_029297 znf1039 coding downstream 80400 55172715 ~ 55178568 (-)
XLOC_029296 BX465836.1 coding downstream 91886 55165697 ~ 55167082 (-)
XLOC_029295 BX465836.2 coding downstream 93341 55164069 ~ 55165627 (-)
XLOC_029294 NA coding downstream 189811 55068021 ~ 55069157 (-)
XLOC_029293 si:dkey-56m15.3 coding downstream 218461 55035164 ~ 55040507 (-)
XLOC_029300 znf998 coding upstream 44686 55313082 ~ 55322519 (-)
XLOC_029301 NA coding upstream 153535 55421931 ~ 55422635 (-)
XLOC_029302 znf569l coding upstream 182315 55450711 ~ 55459037 (-)
XLOC_029303 NA coding upstream 236496 55504892 ~ 55507810 (-)
XLOC_029304 znf1029 coding upstream 239524 55507920 ~ 55592720 (-)
XLOC_029292 NA non-coding downstream 243390 55015116 ~ 55015578 (-)
XLOC_029290 CR388413.2 non-coding downstream 493165 54759510 ~ 54765803 (-)
XLOC_029305 CR762475.2 non-coding upstream 240674 55509070 ~ 55511278 (-)
XLOC_029307 CU278559.1 non-coding upstream 394988 55663384 ~ 55714406 (-)
XLOC_029308 CT583728.16 non-coding upstream 455988 55724384 ~ 55724481 (-)

Expression

Expression of XLOC_029299(BX546503.1) in the Zebrafish Sample from each Developmental Stage of PRJEB12982

Boxplot with 18 boxes. Box plot charts are typically used to display groups of statistical data. Each data point in the chart can have up to 5 values: minimum, lower quartile, median, upper quartile, and maximum.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 15.
End of interactive chart.

Expression of XLOC_029299(BX546503.1) in the Zebrafish Sample of PRJEB12982

Bar chart with 360 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 15.
End of interactive chart.

Co-expression Network