XLOC_020972 (CR847870.3)


Basic Information

Item Value
gene id XLOC_020972
gene name CR847870.3
gene type non-coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 12699121 ~ 12726556 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00041257
ATGATGCTAAATATAAATAGATCTGTGTGTGACACCAATGTTTGTTCTTGTTTTCTCGCCTCAGTTTGGTTAAGAAGAAAGCAGAAACCACAGACTTCGCCAGGATGAAACCGGCACAGAAACGAAAACATCTTGAAACGGAAGTGTCTTTCTTCAGCGAAGCCTTGAAAAATCCCTCCTTCAAGATCAACCCTTTAGCTGCGATCGGTGATCATCTGCGAAAACGACTCAAACAGGAAGACGAACAGAGTTAATCACAACTTCTGGTAGACTACAGGAACTACAACTTCTTAAATACACTCATTTGGTGAAATGAAATAAGACAGTTTTGTAGTACATAAAATGATTAGAatgcaaagaagaaaaaaaagcataatctGCATTATCTGTCACATCATCAAAGCACAGAGAACAGTTAATTGCAGTTTCCTAATTTTATAAACGAGCGATCAGGTTATGTGATATTTAATGACTGTATTCAGTTTGTCTGTTTCGGGCTATAAATAAATCTGTTAGAAAAGTA
>TCONS_00041258
GACGATGTTAAATGTAACACCAAACAAATTTGTCAATTTTAACACGTGCGGGACGATTTCTGAATGTCTGGGCTTTGTGTAAGCTCAAGGATATCAACGAAACGCACATACTAAAACAAAATGGTTGGGAAAATCAAACGGATTCGGCAGAAGCTCCATCATGGTGCAGTGAAGCTGGAAAATGCGCCCGAAAACAGACCCACGCTGGAGAGTCTGGAGAAGATACAGATCCAGTCCTTTCAGCGAGCAAAAACAGACGCAAAACAGCCCAAAAGCAGCATATCTGACACCAGCAATAACAATAACACAAAGGCGATCAGCTTTCCCTCTTCAGTTTTTGCTGGAACTAAAATCTCCCCCGAGTCTTTAGTACAAACGCTGAAGGTCGATGAAGAACAATCAAACGCGACTGTAAACAAACGAGGAGAACTTAAAGGCACAGTAGAAAAGAAACAACAATcgaagaaagaaaaaatgaaggAGCGAAGAGAACGATGGCTCAACAAGATCAGTGTGATAAAGCAGGATCGTGAGCAGCAAGCGGCTGCAGTGCGCAGGAGAGCCACACCGGTGGTGGGCGACATGAGACCTCTGGCAGACGCTCTTCCTGAACTCCAGCAGCTCCTTCCATCAGCGCAGAGCCAGAGGAGGAGGAGCAGAAACACAGCTTTGGTTAAGAAGAAAGCAGAAACCACAGACTTCGCCAGGATGAAACCGGCACAGAAACGAAAACATCTTGAAACGGAAGTGTCTTTCTTCAGCGAAGCCTTGAAAAATCCCTCCTTCAAGATCAACCCTTTAGCTGCGATCGGTGATCATCTGCGAAAACGACTCAAACAGGAAGACGAACAGAGTTAATCACAACTTCTGGTAGACTACAGGAACTACAACTTCTTAAATACACTCATTTGGTGAAATGAAATAAGACAGTTTTGTAGTACATAAAATGATTAGAatgcaaagaagaaaaaaaagcataatctGCATTATCTGTCACATCATCAAAGCACAGAGAACAGTTAATTGCAGTTTCCTAATTTTATAAACGAGCGATCAGGTTATGTGATATTTAATGACTGTATTCAGTTTGTCTGTTTCGGGCTATAAATAAATCTGTTAGAAAAGTA

Function

GO:

id name namespace
GO:0044085 cellular component biogenesis biological_process
GO:0016070 RNA metabolic process biological_process
GO:0016071 mRNA metabolic process biological_process
GO:0016072 rRNA metabolic process biological_process
GO:0022613 ribonucleoprotein complex biogenesis biological_process
GO:0071840 cellular component organization or biogenesis biological_process
GO:0034470 ncRNA processing biological_process
GO:0006364 rRNA processing biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0006396 RNA processing biological_process
GO:0030490 maturation of SSU-rRNA biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:0010467 gene expression biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) biological_process
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) biological_process
GO:0000470 maturation of LSU-rRNA biological_process
GO:0042273 ribosomal large subunit biogenesis biological_process
GO:0042274 ribosomal small subunit biogenesis biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0034660 ncRNA metabolic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0030684 preribosome cellular_component
GO:0030686 90S preribosome cellular_component
GO:0030687 preribosome, large subunit precursor cellular_component
GO:0032040 small-subunit processome cellular_component
GO:0044422 obsolete organelle part cellular_component
GO:0044424 obsolete intracellular part cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0044428 obsolete nuclear part cellular_component
GO:0070013 intracellular organelle lumen cellular_component
GO:0044446 obsolete intracellular organelle part cellular_component
GO:0044452 obsolete nucleolar part cellular_component
GO:0032991 protein-containing complex cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0005634 nucleus cellular_component
GO:0031974 membrane-enclosed lumen cellular_component
GO:0031981 nuclear lumen cellular_component
GO:0043226 organelle cellular_component
GO:0043227 membrane-bounded organelle cellular_component
GO:0043228 non-membrane-bounded organelle cellular_component
GO:0043229 intracellular organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0043232 intracellular non-membrane-bounded organelle cellular_component
GO:0043233 organelle lumen cellular_component
GO:0005730 nucleolus cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0030515 snoRNA binding molecular_function
GO:0097159 organic cyclic compound binding molecular_function
GO:1901363 heterocyclic compound binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-060825-113 Predicted to act upstream of or within maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Predicted to be located in nucleolus. Predicted to be part of 90S preribosome and preribosome, small subunit precursor. Orthologous to human SLX9 (SLX9 ribosome biogenesis factor).

Ensembl:

ensembl_id ENSDARG00000071500 ENSDARG00000093061

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00041257 False 523 lncRNA 0.37 2 12699121 12700988
TCONS_00041258 True 1127 mRNA 0.43 6 12699121 12726556

Neighbor

gene id symbol gene type direction distance location
XLOC_020971 adarb1a coding downstream 5284 12641580 ~ 12693837 (-)
XLOC_020970 cep70 coding downstream 72914 12604302 ~ 12626207 (-)
XLOC_020969 CR847870.5 coding downstream 114167 12584839 ~ 12584954 (-)
XLOC_020968 zranb3 coding downstream 361340 12217920 ~ 12337781 (-)
XLOC_020967 tmem163b coding downstream 538026 12094484 ~ 12161095 (-)
XLOC_020973 plcd4a coding upstream 2773 12729329 ~ 12746539 (-)
XLOC_020974 cnot9 coding upstream 25730 12752286 ~ 12763350 (-)
XLOC_020975 NA coding upstream 51333 12777889 ~ 12786441 (-)
XLOC_020976 glsa coding upstream 105119 12831675 ~ 12862415 (-)
XLOC_020977 nab1a coding upstream 143719 12870275 ~ 12890921 (-)
XLOC_020962 NA non-coding downstream 1000446 11697272 ~ 11698675 (-)
XLOC_020961 NA non-coding downstream 1024700 11672189 ~ 11674421 (-)
XLOC_020951 NA non-coding downstream 1594850 11102905 ~ 11104271 (-)
XLOC_020950 BX649485.2 non-coding downstream 1608022 11090338 ~ 11091099 (-)
XLOC_020979 NA non-coding upstream 206734 12933290 ~ 12940709 (-)
XLOC_020980 NA non-coding upstream 223264 12949820 ~ 12950292 (-)
XLOC_020981 NA non-coding upstream 231666 12958222 ~ 12964877 (-)
XLOC_020984 BX908726.1 non-coding upstream 375180 13101736 ~ 13112322 (-)

Expression


Co-expression Network