XLOC_008539


Basic Information

Item Value
gene id XLOC_008539
gene name NA
gene type non-coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 25568937 ~ 25570599 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00018972
tagattatatacatttttatttccacagtatttatttctttttaatcttttggcagaaacaaacagatatgtaagtgtttttgtaattgcaactttaaaataacagACAGAATTAATGACATAGCACAATGAACTAATACCATACTTCAGAAGTACCTCAATAAGTGAATGCGACCTTACCTTTTCCAACAAACTCCACCATGATGTCCGCCTGATGGGAATACGACCTCAAGAATGTGAGAGGACTGGCTTTGGCCCAGACATCCAGAGCCGAAGAGATCAGATCATCCACTGCATTCACTGACGCCACATCGAGGAGTCCTCATGACAGCGAGAGTGTCTGCGTTCAGGGTTCCTGTCCCGTTCAAACCAAAAAAACCCTGCATATTCTTCAGTTTAGAAGAGAAAGAGGGACGACTTCTTCTTTTGCGGCCTGCAGAATCTGCTTGAAAACTATAGAATTGCTGCAAGTATTTCTGTAGAAACACAGTAAATAGCAATTAAAATGTAAAGCCTGACTTTGCATGTGTATGATCTAAAGTAAAAAAagttgcatttgtgtatttttattatattatgtcagTAGAATGTATGTTTTTGATATATGTAAGTAAACAATAATTATGATATAATTATTGTGAAACTGAGAAAATGTGTCGGGTCAGAGGGAAAGATAGAAGAACAAATGATTACACCTAAACATGAAGTTAAATATTTTGGTTGCATCTTAAATAGCAATTTGACAGGTAAGAAGATAGCTGGTATAGTCCATTCAAAAATTTGttctaaaatgacattttttttgcaaGACAGGGAGAGCTCTTAGATACCcaaacttaaatatatttaaaaaatattgcctAGTGCATTAGTGCAGCATACTTCTACTATTGATACAGCCTTTTGGTACAAAAGGTAGTTctaaaaagtgaaaaataaattgCAGTCCAAAATAAGTTGTGTAGAATTGTCATGAAAGTACCTCCACTGACACATTTACATGAAAAACATTCtagtaaaagtatttttattcaagTCGAAAAAACGTTTTTGAAATTAGTGATGATGTTAAAGATTTTACAGAAAATGGTAGCAAAATATTTTCTTGATGATCATGTTTAAGTTATTGAGGTACACTGCATTCTTCAAGAGCAAGTAGCAGGTATTATTCTTGAAGATTTAAGAGTGAAATGGGTAAAAATACTTTTTAGGTACACTAGCTTTGTTGCTTTGTATAAATTGCCTATAAGCGTTTTAAAGAGATTCAATTTGTGTGTTTTAGAAGGGAAATTAAAAAATGGTTGTTTTATGGTTGAAATTGAAGATCTTGTTGACGAGTTGCTGAGCTGACGATGTTTGCACTCCTTTTATGATTTGCTTGTTCGATTTGCTCGTTTTTAGGATTTTCAAGGACCCCAATGAAAATAAGACTGGCATTTTTGTGTATTTCATCCTCAACAGTTTTTAAACTTTATGTGAATCAGTGTAATTGGac

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: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:0016070 RNA metabolic process biological_process
GO:0007492 endoderm development 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: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:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0048785 hatching gland development biological_process
GO:0090304 nucleic acid metabolic process 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:1901576 organic substance biosynthetic process biological_process
GO:0009887 animal organ morphogenesis 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:0006139 nucleobase-containing compound metabolic process biological_process
GO:0048568 embryonic organ development biological_process
GO:0090092 regulation of transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:1903224 regulation of endodermal cell differentiation biological_process
GO:0010453 regulation of cell fate commitment 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:0010470 regulation of gastrulation biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0044271 cellular nitrogen compound biosynthetic process 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:0060255 regulation of macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0061311 cell surface receptor signaling pathway involved in heart development biological_process
GO:0061312 BMP signaling pathway involved in heart development 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:0003303 BMP signaling pathway involved in heart jogging biological_process
GO:0034654 nucleobase-containing compound biosynthetic process 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:0046483 heterocycle metabolic process 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:0009790 embryo development biological_process
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: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
ko05164 Influenza A
ko03200 Viral proteins

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00018972 True 1495 lncRNA 0.33 2 25568937 25570599

Neighbor

gene id symbol gene type direction distance location
XLOC_008538 npat coding upstream 26345 25528290 ~ 25542592 (+)
XLOC_008537 zgc:152863 coding upstream 69419 25489406 ~ 25499518 (+)
XLOC_008535 pak4 coding upstream 82927 25452092 ~ 25486010 (+)
XLOC_008536 CU856359.1 coding upstream 99092 25469729 ~ 25469845 (+)
XLOC_008534 aifm4 coding upstream 120311 25438714 ~ 25448626 (+)
XLOC_008540 tsr1 coding downstream 64727 25635326 ~ 25656331 (+)
XLOC_008541 CT027805.2 coding downstream 96988 25667587 ~ 25667701 (+)
XLOC_008542 hic1 coding downstream 110445 25681044 ~ 25690267 (+)
XLOC_008543 NA coding downstream 325866 25896465 ~ 25902650 (+)
XLOC_008544 CR848822.1 coding downstream 535716 26106315 ~ 26106433 (+)
XLOC_008463 BX663520.1 misc upstream 4316655 21252191 ~ 21252282 (+)
XLOC_008533 NA non-coding upstream 169363 25395901 ~ 25399574 (+)
XLOC_008532 NA non-coding upstream 191443 25370567 ~ 25377494 (+)
XLOC_008531 NA non-coding upstream 359095 25208392 ~ 25209842 (+)
XLOC_008529 NA non-coding upstream 473639 25094836 ~ 25095298 (+)
XLOC_008546 CABZ01021926.1 non-coding downstream 869514 26440113 ~ 26440227 (+)
XLOC_008549 NA non-coding downstream 1105386 26675985 ~ 26680699 (+)

Expression


Co-expression Network