XLOC_004061 (rpf1)


Basic Information

Item Value
gene id XLOC_004061
gene name rpf1
gene type 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 16094661 ~ 16115804 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00007748
GTACCGGAAGTGAAGATTCTGTCACATGTGTGTGAAGACAGTGGCAGCTGAAAATGGATTGTACAGATTCAACATCTTCGGGACATGTTtctaaaaaaaagagcaaaacaaaGAAACTAAAGCGAACGATGAAAGCCGTTAAAGCGCCAGTGGAAGAGATGGACCAGGCGGAGTGTGAAGTAAAAGAAGAAAAGTCAGCTTCAGGACCGTGTTTTCCTCCCACTTTCAGCGTGTCTGAGATCAAAAATAAGCAGCGCAGACATACGATGTTCCTTAAACTCAAAGAGGAGAAAAGAAAGAAAAGAATGGAactgaagaaaaaagaaagaaaagctctTGGTGATAAGGCTCCACCTAAAGAAGTTCCCAAGACAATAGAAAACCAGAGAATATACGATGAAACTACAGTCAATCCAGAGGATGAGgagGTGGCTTTTGATGAAGGAACTGATGAGTTCTCGGCTTACTTCAATCGGCTTACAAATCCTAAAGTTCTCATCACCACTTCAGACAGGCCCAGAGGAAGGACGGTGAGATTTTGCGATCAATTGGCAACAGTAATCCCACATGCATACGTGTACTACAGAAGAGGTCTGGCTCTGAAAAAAGTCATTCCACAATGTATATCAAGGGGTTTCACGTATCTTATGGTGATTAATGAAGACCGAAAAGTGCCAAATGGTATGGTTCTTTGTCACCTTCCCGATGGGCCAACTGCACATTTCAAAGTCAGTAGTGTTCGCCTTCGCAAAGAAATGAAGagAAGAGGTAAAAACCCAACAGAACACTCCCCAGAAGTCATTCTCAACAACTTCACTACAAGACTTGGTCACTCCATTGGCCGTCTCTTTGCTGCTCTGTTTCCTCATGATCCACAGTTTGTGGGCCGTCAAGTGGCCACATTTCACAATCAAAGAGACTTTATCTTTTTCAGGTTTCACAGGTATATATTCAAGAATGAAAAGAAAGTGGGTATACAAGAACTAGGACCTCGCTTCACACTTAAACTCCGCTCCTTACAGAAGGGAACCTTTGACTCAAAATTTGGGGAATACGAGTGGGTTCACAAGCGCCATGAGATGGACTCCAGCAGAAGAAAATTCCATCTCTGAGGAAAATACGGGCAACAATGGTCAACTGTGTAGAGGTttcataaatgtataaaaataacttGAATTGAAACTTCAGCTCTGTAGTTTCTGTTTCACAGTCTTGCAATTTATGCATACATTTATAGTCTGGCTGTACAAAATTTGTGCTTGCTTTGTTTTGAGGCATGATAAATGAAAGACATTTATTTTCCTCATTGTATTTTCTTgctaaaattttgaaaaaaaaaaaaaaaaagggctgtTGAAAAGGTTAAAAATGCGAATTGTTGTGTGTTTAGGTGAAGTTTTAGGCAAGATTTGTTCTCACCATTTaccaaaatgctttaaaatgtgcaaaaatgtaACTCAACTTTAAAAGACCTAAAGACTCATTGTGGACGTCTgatattttaattaaagaaatttGAATGA
>TCONS_00007749
GTACCGGAAGTGAAGATTCTGTCACATGTGTGTGAAGACAGTGGCAGCTGAAAATGGATTGTACAGATTCAACATCTTCGGGACATGTTtctaaaaaaaagagcaaaacaaaGAAACTAAAGCGAACGATGAAAGCCGTTAAAGCGCCAGTGGAAGAGATGGACCAGGCGGAGTGTGAAGTAAAAGAAGAAAAGTCAGCTTCAGGACCGTGTTTTCCTCCCACTTTCAGCGTGTCTGAGATCAAAAATAAGCAGCGCAGACATACGATGTTCCTTAAACTCAAAGAGGAGAAAAGAAAGAAAAGAATGGAactgaagaaaaaagaaagaaaagctctTGGTGATAAGGCTCCACCTAAAGAAGTTCCCAAGACAATAGAAAACCAGAGAATATACGATGAAACTACAGTCAATCCAGAGGATGAGgagGTGGCTTTTGATGAAGGAACTGATGAGTTCTCGGCTTACTTCAATCGGCTTACAAATCCTAAAGTTCTCATCACCACTTCAGACAGGCCCAGAGGAAGGACGGTGAGATTTTGCGATCAATTGGCAACAGTAATCCCACATGCATACGTGTACTACAGAAGAGGTCTGGCTCTGAAAAAAGTCATTCCACAATGTATATCAAGGGGTTTCACGTATCTTATGGTGATTAATGAAGACCGAAAAGTGCCAAATGGTATGGTTCTTTGTCACCTTCCCGATGGGCCAACTGCACATTTCAAAGTCAGTAGTGTTCGCCTTCGCAAAGAAATGAAGCGCCATGAGATGGACTCCAGCAGAAGAAAATTCCATCTCTGAGGAAAATACGGGCAACAATGGTCAACTGTGTAGAGGTttcataaatgtataaaaataacttGAATTGAAACTTCAGCTCTGTAGTTTCTGTTTCACAGTCTTGCAATTTATGCATACATTTATAGTCTGGCTGTACAAAATTTGTGCTTGCTTTGTTTTGAGGCATGATAAATGAAAGACATTTATTTTCCTCATTGTATTTTCTTgctaaaattttgaaaaaaaaaaaaaaaaagggctgtTGAAAAGGTTAAAAATGCGAATTGTTGTGTGTTTAGGTGAAGTTTTAGGCAAGATTTGTTCTCACCATTTaccaaaatgctttaaaatgtgcaaaaatgtaACTCAACTTTAAAAGACCTAAAGACTCATTGTGGACGTCTgatattttaattaaagaaatttGAATG
>TCONS_00007750
GATTCTGTCACATGTGTGTGAAGACAGTGGCAGCTGAAAATGGATTGTACAGATTCAACATCTTCGGGACATGTTtctaaaaaaaagagcaaaacaaaGAAACTAAAGCGAACGATGAAAGCCGTTAAAGCGCCAGTGGAAGAGATGGACCAGGCGGAGTGTGAAGTAAAAGAAGAAAAGTCAGCTTCAGGACCGTGTTTTCCTCCCACTTTCAGCGTGTCTGAGATCAAAAATAAGCAGCGCAGACATACGATGTTCCTTAAACTCAAAGAGGAGAAAAGAAAGAAAAGAATGGAactgaagaaaaaagaaagaaaagctctTGGTGATAAGGCTCCACCTAAAGAAGTTCCCAAGACAATAGAAAACCAGAGAATATACGATGAAACTACAGTCAATCCAGAGGATGAGgagGTGGCTTTTGATGAAGGAACTGATGAGTTCTCGGCTTACTTCAATCGGCTTACAAATCCTAAAGTTCTCATCACCACTTCAGACAGGCCCAGAGGAAGGACGGTGAGATTTTGCGATCAATTGGCAACAGTAATCCCACATGCATACGTGTACTACAGAAGAGGTCTGGCTCTGAAAAAAGTCATTCCACAATGTATATCAAGGGGTTTCACGTATCTTATGGTGATTAATGAAGACCGAAAAGTGCCAAGTATCCTTTTCTCAGATATCAATGTTACCACTGTTAAGATCTTCTTAagaaatgtttgtattttgtacTTGGTGGGGTATTGGGATATATTACC

Function

symbol description
rpf1 Predicted to enable RNA binding activity. Predicted to be involved in maturation of 5.8S rRNA and maturation of LSU-rRNA. Predicted to act upstream of or within ribosome biogenesis. Predicted to be located in nucleus. Predicted to be part of preribosome, large subunit precursor. Predicted to be active in nucleolus. Orthologous to human RPF1 (ribosome production factor 1 homolog).

GO:

id name namespace
GO:0006364 rRNA processing biological_process
GO:0000460 maturation of 5.8S rRNA biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0000470 maturation of LSU-rRNA biological_process
GO:0030687 preribosome, large subunit precursor cellular_component
GO:0005634 nucleus cellular_component
GO:0005730 nucleolus cellular_component
GO:0019843 rRNA binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko03009 Ribosome biogenesis

ZFIN:

id description
ZDB-GENE-040625-177 Predicted to enable RNA binding activity. Predicted to be involved in maturation of 5.8S rRNA and maturation of LSU-rRNA. Predicted to act upstream of or within ribosome biogenesis. Predicted to be located in nucleus. Predicted to be part of preribosome, large subunit precursor. Predicted to be active in nucleolus. Orthologous to human RPF1 (ribosome production factor 1 homolog).

Ensembl:

ensembl_id ENSDARG00000005738

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00007748 False 1523 mRNA 0.39 9 16094661 16115804
TCONS_00007749 False 1213 mRNA 0.38 7 16094662 16115804
TCONS_00007750 True 758 lncRNA 0.41 5 16104008 16115790

Neighbor

gene id symbol gene type direction distance location
XLOC_004060 SPATA1 coding downstream 1639 16084581 ~ 16093022 (-)
XLOC_004059 CR848761.1 coding downstream 36354 16058191 ~ 16058307 (-)
XLOC_004058 zgc:173544 coding downstream 73139 16014527 ~ 16021522 (-)
XLOC_004056 rap1ab coding downstream 219607 15833565 ~ 15875054 (-)
XLOC_004057 FP003590.1 coding downstream 248148 15845588 ~ 15846513 (-)
XLOC_004062 NA coding upstream 4208 16120012 ~ 16120290 (-)
XLOC_004064 arpc4l coding upstream 24093 16139897 ~ 16152400 (-)
XLOC_004065 rab7a coding upstream 60799 16176603 ~ 16215470 (-)
XLOC_004066 lrig1 coding upstream 213972 16329776 ~ 16395956 (-)
XLOC_004067 AL844563.2 coding upstream 528593 16644397 ~ 16644513 (-)
XLOC_004019 CR450764.8 misc downstream 3402970 12691395 ~ 12691691 (-)
XLOC_004015 CR450764.4 misc downstream 3472894 12621518 ~ 12621767 (-)
XLOC_004013 CABZ01022569.1 misc downstream 3503365 12590999 ~ 12591296 (-)
XLOC_004008 BX000700.19 misc downstream 3581399 12512966 ~ 12513262 (-)
XLOC_004006 BX000700.27 misc downstream 3594399 12499966 ~ 12500262 (-)
XLOC_004063 CR854846.1 misc upstream 11578 16127382 ~ 16127678 (-)
XLOC_004055 FP016142.1 non-coding downstream 285642 15806392 ~ 15809019 (-)
XLOC_004054 FP016142.7 non-coding downstream 291024 15802450 ~ 15803637 (-)
XLOC_004053 FP016142.3 non-coding downstream 294738 15798258 ~ 15799923 (-)
XLOC_004068 AL844563.1 non-coding upstream 553414 16669218 ~ 16675164 (-)
XLOC_004070 NA non-coding upstream 965618 17081422 ~ 17091195 (-)
XLOC_004071 CR769769.2 non-coding upstream 977949 17093753 ~ 17097933 (-)

Expression


Co-expression Network