RNA id: TCONS_00028869


Basic Information

Item Value
RNA id TCONS_00028869
length 1392
RNA type mRNA
GC content 0.49
exon number 10
gene id XLOC_014603
representative False

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 10859122 ~ 10881508 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CCAATCAGCGACGCTGTCACTTGGAGAACAGAACTAGAAGATTTCCAAGATGGTGCTGGAAAGTACTATGGTCTGTGTGGACAACAGTGAGTACATGAGGAATGGAGATTTCCTGCCCACCAGGTTACAGGCGCAGCAGGACGCCGTCAACATTGTCTGCCACTCAAAGACCCGCAGCAACCCAGAGAACAATGTGGGCCTTATCACAATGGCCAATAATTGCGAGGTCCTCACCACTTTAACACCAGACACTGGCCGCATCCTTTCAAAGCTCCATGCGGTTCAGCCTCTGGGAAAAATCTCCTTCTGCACTGGCATACGAGTGGCACATCTGGCACTGAAGCATAGACAAGGCAAGAACCACAAGATGAGGATTGTCGCTTTTGTGGGCAGCCCAGTAGAGGACAATGAAAAAGATCTGGTGAAGATGGCAAAGAGGTTGAAAAAAGAAAAGGTCAATGTGGATATAATCAATTTCGGAGAAGAGGAGATGAACACAGAGAAACTGACTGCATTTGTCAACACTCTCAATGGAAAAGAGGGCACAGGTTCTCATCTGGTCACTGTGCCTCCTGGGCCGAGTCTTGCTGATGCCCTGCTGTCTTCTCCTATCCTGGCTGGTGAAGGTGGCACCATGATTGGTCTGGGTGCAAGTGACTTTGAGTTTGGGGTGGACCCCAGTGCAGACCCAGAGCTGGCCCTGGCTCTGCGTGTGTCTATGGAGGAACAAAGGCAAAGGCAGGAAGAGGAGGCTCGCAGAGCGGCCGTCCAATCAGCAGCTGAGGCTGGCATTCCCACTACAGCCAGTGATGAATCAGAGGAAGCTCTTTTGAAGATGTCTGCATCTCAGCCTGAGAGTGGTGTAGCTGCACTTCCAGACTTCAGCAGCATGACGGAGGAGGAGCAGATTGCGTATGCCATGCAGATGTCCCTGGCAGGGGGAGAATTTGGAGAATCAATGGATACGGGAGCTCCCATCGACACTGCAGAATCTAAGGAAGAGGATGATTATGATGTGATGCAGGACCCAGAATTCCTGCAAAGTGTCCTGGAGAATCTACCTGGTGTTGACCCCAACAATGAGGCCATCCGCAATGCAATGGGATCTCTGGCCTCTCAGAGTGGTAACAAACCAGAGGGGAAAAAAGATGATGAGAAGAAGAAATAACTGTTTCTGTTTGTGACCGACGCACAAGATATTTGACATGAAATGAGTCAAGAAGCGGCCAGCAGAAGTCCATTAAGATGCGTATGGATTTGCTAAGATATTAAATAGCAGATTACTGCAATGTTGTGTGGTACCTCACAAATTCACACATGGCTTGCTTGCTTCCTCTTTTGCTCTGTTCACAATTGattaaatatttgataaaacCCTGCAAAATTTGATCT

Function

GO:

id name namespace
GO:0044085 cellular component biogenesis biological_process
GO:0030099 myeloid cell differentiation biological_process
GO:0048731 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:0008152 metabolic process biological_process
GO:0043009 chordate embryonic development biological_process
GO:0019538 protein metabolic process biological_process
GO:0043603 cellular amide metabolic process biological_process
GO:0048513 animal organ development 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:1901576 organic substance biosynthetic process biological_process
GO:0007275 multicellular organism development biological_process
GO:0006412 translation 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: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:0005829 cytosol cellular_component
GO:0005840 ribosome cellular_component
GO:1905368 peptidase complex 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: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

ZFIN:

id description
ZDB-GENE-040625-104 Predicted to enable polyubiquitin modification-dependent protein binding activity. Predicted to be involved in proteasome assembly and proteasome-mediated ubiquitin-dependent protein catabolic process. Predicted to be part of proteasome regulatory particle, base subcomplex. Predicted to be active in cytosol and nucleus. Orthologous to human PSMD4 (proteasome 26S subunit ubiquitin receptor, non-ATPase 4).

Ensembl:

ensembl_id ENSDART00000160438

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00028865 lncRNA downstream 6802 10859194 ~ 10864799 (-) False XLOC_014603
TCONS_00028866 lncRNA downstream 11152 10859122 ~ 10860449 (-) False XLOC_014603
TCONS_00028835 lncRNA downstream 552639 10313927 ~ 10318962 (-) True XLOC_014586
TCONS_00029757 lncRNA downstream 964662 9904324 ~ 9906939 (-) True XLOC_014578
TCONS_00028805 lncRNA downstream 1188093 9676517 ~ 9683508 (-) True XLOC_014572
TCONS_00030168 lncRNA upstream 338253 11219761 ~ 11227568 (-) True XLOC_014612
TCONS_00028909 lncRNA upstream 1253283 12134791 ~ 12138739 (-) False XLOC_014624
TCONS_00028922 lncRNA upstream 1517036 12398544 ~ 12404316 (-) False XLOC_014631
TCONS_00030169 lncRNA upstream 1739418 12620926 ~ 12623962 (-) True XLOC_014632
TCONS_00030170 lncRNA upstream 2085511 12967019 ~ 13008216 (-) False XLOC_014635
TCONS_00028864 mRNA downstream 61595 10805858 ~ 10810006 (-) True XLOC_014602
TCONS_00028863 mRNA downstream 100043 10738150 ~ 10771558 (-) True XLOC_014601
TCONS_00028861 mRNA downstream 141113 10692584 ~ 10730488 (-) True XLOC_014599
TCONS_00028859 mRNA downstream 214925 10653645 ~ 10656676 (-) True XLOC_014598
TCONS_00028858 mRNA downstream 214934 10649426 ~ 10656667 (-) False XLOC_014598
TCONS_00028872 mRNA upstream 10957 10892465 ~ 10915898 (-) True XLOC_014604
TCONS_00028873 mRNA upstream 36094 10917602 ~ 10920577 (-) True XLOC_014605
TCONS_00028874 mRNA upstream 73829 10955337 ~ 10971230 (-) True XLOC_014606
TCONS_00028875 mRNA upstream 103861 10985369 ~ 11014641 (-) False XLOC_014607
TCONS_00028876 mRNA upstream 103861 10985369 ~ 11031394 (-) False XLOC_014607
TCONS_00028867 other downstream 11135 10859217 ~ 10860466 (-) False XLOC_014603
TCONS_00028860 other downstream 141123 10692166 ~ 10730478 (-) False XLOC_014599
TCONS_00028862 other downstream 166126 10705459 ~ 10705475 (-) True XLOC_014600
TCONS_00028853 other downstream 224779 10636369 ~ 10646822 (-) False XLOC_014597
TCONS_00028825 other downstream 629490 10238453 ~ 10242111 (-) True XLOC_014584
TCONS_00028885 other upstream 311741 11193249 ~ 11193363 (-) True XLOC_014611
TCONS_00028897 other upstream 843988 11725496 ~ 11725631 (-) True XLOC_014620
TCONS_00028905 other upstream 1164946 12046454 ~ 12046570 (-) True XLOC_014623
TCONS_00028907 other upstream 1249537 12131045 ~ 12131180 (-) True XLOC_014625
TCONS_00028910 other upstream 1253339 12134847 ~ 12145765 (-) True XLOC_014624

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000321_03375884_03385622.mRNA True 3802 mRNA 0.41 10 CI01000321 3373433 ~ 3385854 (+)
bowfin (Amia calva) AMCG00012419 True 2010 mRNA 0.55 8 CM030138.1 17782487 ~ 17795215 (-)