XLOC_003886


Basic Information

Item Value
gene id XLOC_003886
gene name NA
gene type non-coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 6276900 ~ 6278698 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00008450
caaggaaagtgaaacttcagctagaccttgagttcagtttacaacatgaaaATCCTGatttcaacatctgatcaacacctgattttcatctgagagtaccaacatgttacaaatgagaattttccccacaaattctttgcaaaactggaccaccacctatttaatttgatgacaattttaaggcaaacagcatccaaaactggcaagacagcagataccctggctaatcttttaaaggtttatgatgagcaggaactgaatgatgtcagttcatgacggactactcttatcagaggtcttttggtcttgctgcgtgagcgtgacttaagattctttaggaacaccctggtaagacttcattcattcttttcacaattaggcatgtttaatgaaaagatgaaagttttgaaaacttttacttaataacatatttgtaatcaagaatagttgatgaatcatataatattggctcagtcattttgatactgtccttacattaatatccttgaattatgtttttagattgataatcctgctgactgaagatactttattggccctgcattcactgagggtctctgttgtcctgaagaatgaattggacaccacccacagcacacttccagacctttcttgtcttgtatggattaatcagactccagctcgtgatgatcccacatccgactactcactgtccttcacttacttcccggagcaccagagcacctcaccttaaagaagagcaccgtttacaccccattcacgttgtaaataaagcaccctccggggacttgtctgtaaacttatccaactgtgttgctgttttccctctgcctcgctgcaatatatatatatatatatctgctctccgttaaacagaaattgggggaaaaaataaatgggggcgaataattctgacttcaacgag

Function

GO:

id name namespace
GO:0044085 cellular component biogenesis biological_process
GO:0016070 RNA metabolic process biological_process
GO:0016072 rRNA metabolic process biological_process
GO:0071826 ribonucleoprotein complex subunit organization biological_process
GO:0022613 ribonucleoprotein complex biogenesis biological_process
GO:0022618 ribonucleoprotein complex assembly 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:0031290 retinal ganglion cell axon guidance biological_process
GO:0006396 RNA processing 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:0000470 maturation of LSU-rRNA biological_process
GO:0042273 ribosomal large subunit biogenesis biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0031167 rRNA methylation biological_process
GO:0034660 ncRNA metabolic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0030684 preribosome cellular_component
GO:0030687 preribosome, large subunit precursor cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0044428 obsolete nuclear part cellular_component
GO:0070013 intracellular organelle lumen cellular_component
GO:0005634 nucleus cellular_component
GO:0031974 membrane-enclosed lumen cellular_component
GO:0031981 nuclear lumen cellular_component
GO:0043228 non-membrane-bounded 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:0097159 organic cyclic compound binding molecular_function
GO:1901363 heterocyclic compound binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0140102 catalytic activity, acting on a rRNA molecular_function
GO:0008649 rRNA methyltransferase activity molecular_function

KEGG:

id description
ko00240 Pyrimidine metabolism
ko03020 RNA polymerase
ko03230 Viral genome structure
ko05164 Influenza A
ko05016 Huntington disease
ko03200 Viral proteins

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00008450 True 928 lncRNA 0.39 4 6276900 6278698

Neighbor

gene id symbol gene type direction distance location
XLOC_003885 ccl25b coding downstream 11177 6259048 ~ 6265723 (-)
XLOC_003884 pole4 coding downstream 70275 6197276 ~ 6206625 (-)
XLOC_003883 ccl44 coding downstream 88487 6182680 ~ 6188413 (-)
XLOC_003882 NA coding downstream 180534 6086300 ~ 6096366 (-)
XLOC_003881 CT573239.1 coding downstream 204834 6071960 ~ 6072066 (-)
XLOC_003887 NA coding upstream 37956 6316654 ~ 6324557 (-)
XLOC_003888 nrtn coding upstream 70745 6349443 ~ 6386572 (-)
XLOC_003889 ndufa11 coding upstream 132471 6411169 ~ 6429705 (-)
XLOC_003890 VMAC coding upstream 138752 6417450 ~ 6420917 (-)
XLOC_003891 NA coding upstream 151275 6429973 ~ 6431348 (-)
XLOC_003938 BX324177.10 misc upstream 5060106 11338804 ~ 11339100 (-)
XLOC_003942 BX324177.17 misc upstream 5088896 11367594 ~ 11367890 (-)
XLOC_003943 BX324177.3 misc upstream 5091757 11370455 ~ 11370653 (-)
XLOC_003944 BX324177.4 misc upstream 5102206 11380904 ~ 11381204 (-)
XLOC_003945 BX324177.6 misc upstream 5105135 11383833 ~ 11384130 (-)
XLOC_003878 NA non-coding downstream 270159 6005807 ~ 6006741 (-)
XLOC_003876 NA non-coding downstream 312529 5957009 ~ 5964371 (-)
XLOC_003872 NA non-coding downstream 501998 5773096 ~ 5774902 (-)
XLOC_003893 NA non-coding upstream 176336 6455034 ~ 6456300 (-)
XLOC_003894 BX936438.1 non-coding upstream 502010 6780708 ~ 6782076 (-)
XLOC_003895 NA non-coding upstream 513848 6792546 ~ 6799938 (-)

Expression


Co-expression Network