XLOC_016240


Basic Information

Item Value
gene id XLOC_016240
gene name NA
gene type non-coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007113.7
NCBI id CM002886.2
chromosome length 59640629
location 14514166 ~ 14515594 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00033354
AGACACacatgaggaagctcgactcagcTTGGCTTGCAGACAGATAAGGACAGTGATTGCCTGTCATACACCTAAAgaaagaacaggGGCATTAAAGACACAACTATAGTGaacgtgatgaagaaaaattatttggaacaaagaggctggagaAAAAACTGATATGAAGATTTAAGAAATTGATGCAGCACCGCAAGTACCATCACCACCAATGACAATGGCAGGATCCTTAAgaacaccatcaagatgcacagatgctGTACATttcagtacacctatgaacatttacagtccttgTTCAAGTACAGTTGGAGATCAAGACAACTTATTGCAACTcgtcatgtctttcacgactgataaaagttttaaaatcatgtgacgtcataaagcagcaactgtgcctgattctcacaaatcagcaaaaccaaaacagacgtgatgaaattccagatgtaaacacatttgacctttctttgtccaatttgatttggaaaaacttgaaaatcaactaaacgagcagcccgaacaaatgaagaaactggtagcctactttggaATCATTGGTGTTTTCCACTAAGCAGTTTGGTGTGTCCCGGGAAAGCTTTTGGCTCACTTTTTGGCTGAACAAATTAACTGGAGCAGGGCAAACCAAAATGTGGCCTTTCATGCACTCTCCCTTAGGACTGTCTAGTCAATGTAGTGAGGagaaatgtccataccacgccactgataaagaagtggaaaaatgcattacaaggtggcTACAACGTGCTCCTGACAGGGCTGGAGGAAGGAgggaagaagagaaagctaatgtgtcaaatgtctacatcaataatttattttttaaacaacattttaagtgtatt
>TCONS_00033355
aatgtatctgatcaaggGGCATTAAAGACACAACTATAGTGaacgtgatgaagaaaaattatttggaacaaagaggctggagaAAAAACTGATATGAAGATTTAAGAAATTGATGCAGCACCGCAAGTACCATCACCACCAATGACAATGGCAGGATCCTTAAgaacaccatcaagatgcacagatgctGTACATttcagtacacctatgaacatttacagtccttgTTCAAGTACAGTTGGAGATCAAGACAACTTATTGCAACTcgtcatgtctttcacgactgataaaagttttaaaatcatgtgacgtcataaagcagcaactgtgcctgattctcacaaatcagcaaaaccaaaacagacgtgatgaaattccagatgtaaacacatttgacctttctttgtccaatttgatttggaaaaacttgaaaatcaactaaacgagcagcccgaacaaatgaagaaactggtaagtttcTTGCTTATTTCtaagtgttttatgtttatttatttatttatgtgttttttgcttcgtaggtagcctactttggaATCATTGGTGTTTTCCACTAAGCAGTTTGGTGTGTCCCGGGAAAGCTTTTGGCTCACTTTTTGGCTGAACAAATTAACTGGAGCAGGGCAAACCAAAATGTGGCCTTTCATGCACTCTCCCTTAGGACTGTCTAGTC
>TCONS_00033356
AGACACacatgaggaagctcgactcagcTTGGCTTGCAGACAGATAAGGACAGTGATTGCCTGTCATACACCTAAAgaaagaacaggGGCATTAAAGACACAACTATAGTGaacgtgatgaagaaaaattatttggaacaaagaggctggagaAAAAACTGATATGAAGATTTAAGAAATTGATGCAGCACCGCAAGTACCATCACCACCAATGACAATGGCAGGATCCTTAAgaacaccatcaagatgcacagatgctGTACATttcagtacacctatgaacatttacagtccttgTTCAAGTACAGTTGGAGATCAAGACAACTTATTGCAACTcgtcatgtctttgtaagaattcaagacatcactaaatttgtaattgcttaatgcagctagaaagtaaagatcaactagagaatatcagcagtgtctaacccactgttgtatttacacaaGTTGCATGAGAATAAGcaacaggttgatttatactaatttgttatttttcttttttagcacgactgataaaagttttaaaatcatgtgacgtcataaagcagcaactgtgcctgattctcacaaatcagcaaaaccaaaacagacgtgatgaaattccagatgtaaacacatttgacctttctttgtccaatttgatttggaaaaacttgaaaatcaactaaacgagcagcccgaacaaatgaagaaactggtaagtttcTTGCTTATTTCtaagtgttttatgtttatttatttatttatgtgttttttgcttcgtaggtagcctactttggaATCATTGGTGTTTTCCACTAAGCAGTTTGGTGTGTCCCGGGAAAGCTTTTGGCTCACTTTTTGGCTG

Function

GO:

id name namespace
GO:0045995 regulation of embryonic 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: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: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:0006366 transcription by RNA polymerase II 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: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:1903225 negative regulation of endodermal cell differentiation biological_process
GO:0021903 rostrocaudal neural tube patterning 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:0021915 neural tube development 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:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0007369 gastrulation 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:0050794 regulation of cellular process biological_process
GO:0060795 cell fate commitment involved in formation of primary germ layer biological_process
GO:2001141 regulation of RNA biosynthetic 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:0042664 negative regulation of endodermal cell fate specification biological_process
GO:0030917 midbrain-hindbrain boundary 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:0046872 metal ion 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: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:0043169 cation binding 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_00033354 False 869 lncRNA 0.40 5 14514166 14515594
TCONS_00033355 False 691 lncRNA 0.38 2 14514537 14515392
TCONS_00033356 True 856 lncRNA 0.37 2 14514607 14515594
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Neighbor

gene id symbol gene type direction distance location
XLOC_016239 CT583708.1 coding downstream 22323 14489942 ~ 14491843 (-)
XLOC_016237 NA coding downstream 73786 14438985 ~ 14440380 (-)
XLOC_016236 NA coding downstream 87499 14394120 ~ 14426667 (-)
XLOC_016235 sgip1b coding downstream 123539 14276639 ~ 14390627 (-)
XLOC_016234 tctex1d1 coding downstream 242083 14207559 ~ 14272083 (-)
XLOC_016241 CABZ01026681.1 coding upstream 139540 14655134 ~ 14656669 (-)
XLOC_016242 NA coding upstream 149055 14664649 ~ 14676427 (-)
XLOC_016243 NA coding upstream 221449 14737043 ~ 14831123 (-)
XLOC_016244 NA coding upstream 273189 14788783 ~ 14789247 (-)
XLOC_016245 si:ch73-366i20.1 coding upstream 274700 14790294 ~ 14798305 (-)
XLOC_016233 CU927934.2 non-coding downstream 485005 14021956 ~ 14029161 (-)
XLOC_016232 CU927934.1 non-coding downstream 503508 14009630 ~ 14010658 (-)
XLOC_016246 NA non-coding upstream 418204 14933798 ~ 14949626 (-)
XLOC_016247 CR788249.2 non-coding upstream 422992 14938586 ~ 14940003 (-)

Expression

Expression of XLOC_016240 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 60.
End of interactive chart.

Expression of XLOC_016240 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 60.
End of interactive chart.

Co-expression Network