XLOC_009474


Basic Information

Item Value
gene id XLOC_009474
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 41238245 ~ 41246009 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00019234
TAAGCGAAAAGAGGGCTTCTTCTGGGTTTTTCTTTGGGATTGCCGGTGACCCGTTGTGTGGACGCACACTAAGCCATGCGGCAGCTGAAGGGCAAACCGAAAAAAGAGTCATGGAAAGACAAAAAGGAGCGTAAACAGGCCATGCATGAGGCGCGAGAGCAGGTGACGACTGTCGTTTTACCGACGCTCGTCGTCCTTGTGCTGCTCATCGTTCTCTTCGTTTATGTGGCCACCAGACCCGGAGCCATCGAGTAAAAAGACTCAAAAACAGCCAAATGTCCCCTGTCCGTGTCTCTATCCTTCCCCCTCATTCTTTCCCAGTGTTACGTTCGGTGTGGATTGAACACAATCATAAGGATGAATGGATTGACTATCTGTGCCACGATTGGAGTTTGTCGAAGGAGTCTTCCATTTTGGTTTCCAATAGAGCTGCTCTTTCAGCCACCAGCATTGGTGTCTGTGGCAGCCATGTTGGCTCCAAATGCATTTACAGGGTTCCAGTTATATGCCAAAGCACCTGAGACGCAGTCGGACTGATCCAGGAACAGATCTGAAGCTTCTGCGCTCAAAGTCTGTACAAGTGAGAAGTGACTAGTAGTATTGCACATGTCTGTAGCATGCACGcttatgcacacacaaacattgaCGGGCGACACATGAAACTGATTCTGACAGAAATGAATGTTATCCAGAATGTACACTTCTGAATGCTCATTACCGAATGCCTCTTAACAAGCGGTCGCTGATGTTTTTTGGTTTAACCGTGCGAGCGAATGCACCATGGAGTGCATGTTTCTATGACACATCTGTGATATACAATCCCAACGGCAAACATGctcttgttttaaaatgtgttccaGCAGGACTTGGATCTAAAAATGTGCCTTAAAACCTTTATTGATTTAACATGCAGTTAAAGTATTAATAAAGAAATAGAAAGCCATG
>TCONS_00018610
GCCTCCTCCTCGGCCTCCTCGTGCGCGTGACGCTCCATTACTGCCACGTAATCTCGGTCGAGCCCCCGCTCACTCACTGAAAACCTCCGGGAACCGTGACAACGACTGCGGAAAACATTCAAACCGTACAGTACGGAACCCCTCCGGGCGGTGCGCGCGGGTGTAGCGGAACACAGACACTGCAGCGGAGGGCTTCTTCTGGGTTTTTCTTTGGGATTGCCGGTGACCCGTTGTGTGGACGCACACTAAGCCATGCGGCAGCTGAAGGGCAAACCGAAAAAAGAGTCATGGAAAGACAAAAAGGAGCGTAAACAGGCCATGCATGAGGCGCGAGAGCAGGTGACGACTGTCGTTTTACCGACGCTCGTCGTCCTTGTGCTGCTCATCGTTCTCTTCGTTTATGTGGCCACCAGACCCGGAGCCATCGAGTAAAAAGACTCAAAAACAGCCAAATGTCCCCTGTCCGTGTCTCTATCCTTCCCCCTCATTCTTTCCCAGTGTTACGTTCGGTGTGGATTGAACACAATCATAAGGATGAATGGATTGACTATCTGTGCCACGATTGGAGTTTGTCGAAGGAGTCTTCCATTTTGGTTTCCAATAGAGCTGCTCTTTCAGCCACCAGCATTGGTGTCTGTGGCAGCCATGTTGGCTCCAAATGCATTTACAGGGTTCCAGTTATATGCCAAAGCACCTGAGACGCAGTCGGACTGATCCAGGAACAGATCTGAAGCTTCTGCGCTCAAAGTCTGTACAAGTGAGAAGTGACTAGTAGTATTGCACATGTCTGTAGCATGCACGcttatgcacacacaaacattgaCGGGCGACACATGAAACTGATTCTGACAGAAATGAATGTTATCCAGAATGTACACTTCTGAATGCTCATTACCGAATGCCTCTTAACAAGCGGTCGCTGATGTTTTTTGGTTTAACCGTGCGAGCGAATGCACCATGGAGTGCATGTTTCTATGACACATCTGTGATATACAATCCCAACGGCAAACATGctcttgttttaaaatgtgttccaGCAGGACTTGGATCTAAAAATGTGCCTTAAAACCTTTATTGATTTAACATGCAGTTAAAGTATTAATAAAGAAATAGAAAGCCATG

Function

GO:

id name namespace
GO:0030097 hemopoiesis biological_process
GO:0044085 cellular component biogenesis biological_process
GO:0030099 myeloid cell differentiation biological_process
GO:0016072 rRNA metabolic process biological_process
GO:0002520 immune system development biological_process
GO:0002262 myeloid cell homeostasis biological_process
GO:0000027 ribosomal large subunit assembly biological_process
GO:0000028 ribosomal small subunit assembly 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:0065003 protein-containing complex assembly biological_process
GO:0008152 metabolic process biological_process
GO:0034470 ncRNA processing biological_process
GO:0043009 chordate embryonic development biological_process
GO:0006364 rRNA processing biological_process
GO:0051726 regulation of cell cycle biological_process
GO:0019538 protein metabolic process biological_process
GO:0043603 cellular amide metabolic process biological_process
GO:0043604 amide biosynthetic process biological_process
GO:1901564 organonitrogen compound metabolic process biological_process
GO:1901566 organonitrogen compound biosynthetic process biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0043043 peptide biosynthetic process biological_process
GO:0048534 hematopoietic or lymphoid organ development biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0007275 multicellular organism development biological_process
GO:0006412 translation biological_process
GO:0006414 translational elongation biological_process
GO:0043933 protein-containing complex subunit organization biological_process
GO:0030218 erythrocyte differentiation biological_process
GO:0048856 anatomical structure development biological_process
GO:0010467 gene expression biological_process
GO:0044237 cellular metabolic process biological_process
GO:0044238 primary metabolic process biological_process
GO:0048872 homeostasis of number of cells biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0042255 ribosome assembly biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0044267 cellular protein metabolic process biological_process
GO:0000470 maturation of LSU-rRNA biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0042273 ribosomal large subunit biogenesis biological_process
GO:0042274 ribosomal small subunit biogenesis biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0070925 organelle assembly biological_process
GO:0006518 peptide metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0034622 cellular protein-containing complex assembly biological_process
GO:0006807 nitrogen compound metabolic process biological_process
GO:0034101 erythrocyte homeostasis biological_process
GO:0002181 cytoplasmic translation biological_process
GO:0032502 developmental process biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0044391 ribosomal subunit cellular_component
GO:0044422 obsolete organelle part cellular_component
GO:0044424 obsolete intracellular part cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0022625 cytosolic large ribosomal subunit cellular_component
GO:0022626 cytosolic ribosome cellular_component
GO:0022627 cytosolic small ribosomal subunit cellular_component
GO:0044444 obsolete cytoplasmic part cellular_component
GO:0044445 obsolete cytosolic part cellular_component
GO:0044446 obsolete intracellular organelle part cellular_component
GO:0044464 obsolete cell part cellular_component
GO:0005829 cytosol cellular_component
GO:0005840 ribosome cellular_component
GO:0032991 protein-containing complex cellular_component
GO:0015934 large ribosomal subunit cellular_component
GO:0015935 small ribosomal subunit cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0005623 obsolete cell cellular_component
GO:0043226 organelle cellular_component
GO:0043228 non-membrane-bounded organelle cellular_component
GO:0043229 intracellular organelle cellular_component
GO:0043232 intracellular non-membrane-bounded organelle cellular_component
GO:0005737 cytoplasm cellular_component
GO:0019843 rRNA binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0005198 structural molecule activity molecular_function
GO:0003723 RNA binding molecular_function
GO:0003735 structural constituent of ribosome molecular_function

KEGG:

id description
ko00230 Purine metabolism
ko00240 Pyrimidine metabolism
ko03020 RNA polymerase
ko03230 Viral genome structure
ko05164 Influenza A
ko05169 Epstein-Barr virus infection
ko05016 Huntington disease
ko03200 Viral proteins

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00019234 False 945 lncRNA 0.46 2 41238245 41245821
TCONS_00018610 True 1122 lncRNA 0.49 2 41238245 41246009

Neighbor

gene id symbol gene type direction distance location
XLOC_009473 slc36a4 coding downstream 3218 41169211 ~ 41235027 (-)
XLOC_009472 NA coding downstream 166048 41068774 ~ 41072197 (-)
XLOC_009471 BX571794.3 coding downstream 877492 40356379 ~ 40360753 (-)
XLOC_009470 kcnj13 coding downstream 970760 40217256 ~ 40267485 (-)
XLOC_009469 si:ch211-281l24.3 coding downstream 1062351 40137564 ~ 40175894 (-)
XLOC_009475 usp16 coding upstream 3763 41249772 ~ 41311295 (-)
XLOC_009476 nlrc8 coding upstream 66023 41312032 ~ 41523292 (-)
XLOC_009477 si:dkey-121n8.7 coding upstream 103259 41349268 ~ 41390410 (-)
XLOC_009478 CR854897.2 coding upstream 147392 41393401 ~ 41396073 (-)
XLOC_009479 CR854897.1 coding upstream 154511 41400520 ~ 41408148 (-)
XLOC_009468 CR388129.1 non-coding downstream 1108704 40125409 ~ 40129541 (-)
XLOC_009467 CR759918.2 non-coding downstream 1169118 40069011 ~ 40069127 (-)
XLOC_009464 NA non-coding downstream 1231707 40002864 ~ 40006538 (-)
XLOC_009482 CR925731.1 non-coding upstream 283251 41529260 ~ 41543440 (-)
XLOC_009483 NA non-coding upstream 394432 41640441 ~ 41667355 (-)
XLOC_009494 NA non-coding upstream 807830 42053839 ~ 42058846 (-)
XLOC_009495 CR925728.2 non-coding upstream 818174 42064183 ~ 42066345 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) G312384 NA non-coding CI01000095 null 6410037 ~ 6410241 (-)
mexican tetra (Astyanax mexicanus) G259493 NA non-coding NW_019171671.1 APWO02001269.1 26500 ~ 26978 (-)