rnf8 (rnf8)


Basic Information

Item Value
gene id rnf8
gene name rnf8
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035899.1
NCBI id CM008302.1
chromosome length 74127438
location 31707054 ~ 31713807 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_007255492.3
ttattttggaattgAGCGCGCCATGAAAAATCCCTCTCGTTGTTGTCGGATCTGTTGTCACATAGTAGCTGCTGGTGTTGTCTTACCTCGCGCCTTTAGTCTGAAATTCATCTGTACCACAGGGGCTGATCTGCTGCTCTGTGTAGTTTGTGTGGAGAAGCTGTAGTTTTGTGTAGTTTAGTGATTGTTGTTGTTGATTAATTCGGTTTGTATCGGTTGTGTATGTTGTGTGATTTActctgttgttttttatgtgCTTTAATGTAGGGGGTTGTGTAGTAGTATAATGTTGTGTAATTTGTTAGTGAGGAGTTTAAGGTAGTTTGCACTAGTCGCGGGTCTTGGGTTAGCTGGGATCTGCTGTCAGCTGCAGGGTTTGTGGTGAagatggcagcagcagcagcagatctcGCTGTCTCAGAGTCTCAGCTGTGATCCCGCTACACTGTGAGAGAATTATGGAGACGGTGGTTGAAGATCAGAAGCGGCCTGAGGAAGGAGACCATCAAGATGATAAAGTATGGTGTTTAAAACGAGTCGGCAAAGACAGCGGCTGGTTACGGCTAACCGAAGACACTGAGGTTACCATTGGTCGTGGCCTGAATGTCACTCATCAGATCCTGTCAGTGAGTTGTCCGTTGATGATCTCCAGGAATCACTGTATGCTAAAGCAAAAGGAGGATGGGCAGTGGACAGTTACTGACAATGAGAGCATGAATGGAGTGTGGGTAAATGGAGTTCGCATTTCTGCTCGGAAACCCTACACCTTacagcaagatgatgttgtgAGGTTCGGTGTCCCTTTGGATAGCAATCCGGTGGAATTTGAGTACGTCCTTATTCACCAAAGTCTtagcaaaatcaaagatttCTTGACTAAAGCTGTTGTTGCCGAAGCTGGACCAAATGCTTCGGCCCTTAAACCCAAAAAGTCAAAGCGCAAGTTTGGTACGGATGAAGCAGAACCAGGTACAACTCTGGATTCCAGGTGCAAGCTTTATCGCAGTTCTGCAACCGACAAAGCTAGTGCTCAGCCCTGTCCAACAGATATACCTGCCTGCAGGTGGCCTGATGACCCACCTGGAAGCTCTGCTGACTGCAGCAACAGCAGCCAGCAGCTGGCTACACTACGGCGTTACAATAACAACCTGCGAGCGCTGAGGGATAGGATGGGGGCCACTCAGAAACAAGCTGCAGAGTTAGAGGGGCAGGAAAACACAAGTCCTGAGCAGCAAAGAAAAATGTTGGAGCTGCAGGAACAGATGGAGGTTTTACAAGGGCAGCTGAACTCCCAGCACGAAATGGCCCTGCAGCGTGTGAATATGCTGGAGAAATCTGTCTGTGAGGAGGAAAGGAGGCTGGAGGTGACGAAAGCTCAGCAGAAGGAAGATGGCCTAAAGAAACAACTGGAGGAGGCTTTGAAAGAGCACCGAAAAGTGATTGAAGAGCTTCAACATGCAAGACAAGGTTTTAAGGAGGTTCTTCAGGCCAAGGATAAAGAGTTAGAGGTTACCAAGgaggagaaggagaaagcACGAGCCCAGAAAGAGGAGGTTGTTACACAGATGACTGAAGTGCTGGAAAATGAACTGCAGTGCATCATCTGCTCTGAGCTTTTTATTGAGGCTGTGACGCTGAACTGTGCACACAGTTTCTGTCTTCACTGTATCTCAGACTGGCGGAGACGAAAGGACGAGTGTCCGATCTGCAGGCAGGCGATCCTCTCCCAGACCCGCTCTCTGGTGCTAGACAACTGCATCGATCGCATGGTGGAGAACCTTAGTGCTGAGATGAGGGAGAGGAGAGTGGCACTAATTAGGGAGAGGAAAGGTCAGAGCAAAGCTCCTGTGGCAGTGGTAGTTATCCAGgacgacagcagcagcagcaacagcgaCAATGACTCTTCAGTTTACTTATCCACAGAGGGCTACCTGATCAACCCCAGGATACCATACTGCGTCGACACCAGTGACTCGTCTTCATGGAGTGATTAAAACCAATAACAGTGTTCTTAGTGAAACACTCGCTCACTTGAAGAATGTGAAGTGTACAGatcatatttgtgtttttttttgtttcttatatGATTGTAGATCAATGTaccatatttgttttgtttccttatataaataaaataggttTATTTGTTTCGCA
>XM_007255493.3
ttattttggaattgAGCGCGCCATGAAAAATCCCTCTCGTTGTTGTCGGATCTGTTGTCACATAGTAGCTGCTGGTGTTGTCTTACCTCGCGCCTTTAGTCTGAAATTCATCTGTACCACAGGGGCTGATCTGCTGCTCTGTGTAGTTTGTGTGGAGAAGCTGTAGTTTTGTGTAGTTTAGTGATTGTTGTTGTTGATTAATTCGGTTTGTATCGGTTGTGTATGTTGTGTGATTTActctgttgttttttatgtgCTTTAATGTAGGGGGTTGTGTAGTAGTATAATGTTGTGTAATTTGTTAGTGAGGAGTTTAAGGTAGTTTGCACTAGTCGCGGGTCTTGGGTTAGCTGGGATCTGCTGTCAGCTGCAGGGTTTGTGGTGAagatggcagcagcagcagcagatctcGCTGTCTCAGAGTCTCAGCTGTGATCCCGCTACACTGTGAGAGAATTATGGAGACGGTGGTTGAAGATCAGAAGCGGCCTGAGGAAGGAGACCATCAAGATGATAAAGTATGGTGTTTAAAACGAGTCGGCAAAGACAGCGGCTGGTTACGGCTAACCGAAGACACTGAGGTTACCATTGGTCGTGGCCTGAATGTCACTCATCAGATCCTGTCAGTGAGTTGTCCGTTGATGATCTCCAGGAATCACTGTATGCTAAAGCAAAAGGAGGATGGGCAGTGGACAGTTACTGACAATGAGAGCATGAATGGAGTGTGGGTAAATGGAGTTCGCATTTCTGCTCGGAAACCCTACACCTTacagcaagatgatgttgtgAGGTTCGGTGTCCCTTTGGATAGCAATCCGGTGGAATTTGAGTACGTCCTTATTCACCAAAGTCTtagcaaaatcaaagatttCTTGACTAAAGCTGTTGTTGCCGAAGCTGGACCAAATGCTTCGGCCCTTAAACCCAAAAAGTCAAAGCGCAAGTTTGGTACGGATGAAGCAGAACCAGGTACAACTCTGGATTCCAGGTGCAAGCTTTATCGCAGTTCTGCAACCGACAAAGCTAGTGCTCAGCCCTGTCCAACAGATATACCTGCCTGCAGGTGGCCTGATGACCCACCTGGAAGCTCTGCTGACTGCAGCAACAGCAGCCAGCAGCTGGCTACACTACGGCGTTACAATAACAACCTGCGAGCGCTGAGGGATAGGATGGGGGCCACTCAGAAACAAGCTGCAGAGTTAGAGGGGCAGGAAAACACAAGTCCTGAGCAGCAAAGAAAAATGTTGGAGCTGCAGGAACAGATGGAGGTTTTACAAGGGCAGCTGAACTCCCAGCACGAAATGGCCCTGCAGCGTGTGAATATGCTGGAGAAATCTGTCTGTGAGGAGGAAAGGAGGCTGGAGGTGACGAAAGCTCAGCAGAAGGAAGATGGCCTAAAGAAACAACTGGAGGAGGCTTTGAAAGAGCACCGAAAAGTGATTGAAGAGCTTCAACATGCAAGACAAGGTTTTAAGGAGGTTCTTCAGGCCAAGGATAAAGAGTTAGAGGTTACCAAGgaggagaaggagaaagcACGAGCCCAGAAAGAGGAGGTTGTTACACAGATGACTGAAGTGCTGGAAAATGAACTGCAGTGCATCATCTGCTCTGAGCTTTTTATTGAGGCTGTGACGCTGAACTGTGCACACAGTTTCTGTCTTCACTGTATCTCAGACTGGCGGAGACGAAAGGACGAGTGTCCGATCTGCAGGCAGGCGATCCTCTCCCAGACCCGCTCTCTGGTGCTAGACAACTGCATCGATCGCATGGTGGAGAACCTTAGTGCTGAGATGAGGGAGAGGAGAGTGGCACTAATTAGGGAGAGGAAAGGTGAGAGGTCAGAGCAAAGCTCCTGTGGCAGTGGTAGTTATCCAGgacgacagcagcagcagcaacagcgaCAATGACTCTTCAGTTTACTTATCCACAGAGGGCTACCTGATCAACCCCAGGATACCATACTGCGTCGACACCAGTGACTCGTCTTCATGGAGTGATTAAAACCAATAACAGTGTTCTTAGTGAAACACTCGCTCACTTGAAGAATGTGAAGTGTACAGatcatatttgtgtttttttttgtttcttatatGATTGTAGATCAATGTaccatatttgttttgtttccttatataaataaaataggttTATTTGTTTCGCA

Function

symbol description
rnf8 Predicted to enable several functions, including protein homodimerization activity; ubiquitin protein ligase activity; and zinc ion binding activity. Predicted to be involved in several processes, including DNA metabolic process; protein ubiquitination; and regulation of nucleobase-containing compound metabolic process. Predicted to act upstream of or within DNA repair and chromatin organization. Predicted to be located in chromosome, telomeric region. Predicted to be part of ubiquitin ligase complex. Predicted to be active in cytosol; nucleus; and site of double-strand break. Orthologous to human RNF8 (ring finger protein 8).

NR:

description
E3 ubiquitin-protein ligase RNF8 isoform X1

GO:

id name namespace
GO:0006303 double-strand break repair via nonhomologous end joining biological_process
GO:0045739 positive regulation of DNA repair biological_process
GO:0070535 histone H2A K63-linked ubiquitination biological_process
GO:0007286 spermatid development biological_process
GO:0045190 isotype switching biological_process
GO:0010212 response to ionizing radiation biological_process
GO:0033523 histone H2B ubiquitination biological_process
GO:0045900 negative regulation of translational elongation biological_process
GO:0006511 ubiquitin-dependent protein catabolic process biological_process
GO:0070936 protein K48-linked ubiquitination biological_process
GO:0043486 histone exchange biological_process
GO:0000781 chromosome, telomeric region cellular_component
GO:0035861 site of double-strand break cellular_component
GO:0000151 ubiquitin ligase complex cellular_component
GO:0005634 nucleus cellular_component
GO:0042393 histone binding molecular_function
GO:0004842 ubiquitin-protein transferase activity molecular_function
GO:0003682 chromatin binding molecular_function
GO:0042803 protein homodimerization activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K10667 RNF8; E3 ubiquitin-protein ligase RNF8

RNA

RNA id representative length rna type GC content exon number start site end site
XM_007255492.3 False 2154 mRNA 0.47 8 31707054 31713807
XM_007255493.3 True 2161 mRNA 0.47 8 31707054 31713807

Neighbor

gene id symbol gene type direction distance location
LOC103022697 NA coding upstream 15624 31665102 ~ 31691430 (+)
ppp2r5a ppp2r5a coding upstream 48841 31612513 ~ 31658213 (+)
dtl dtl coding upstream 98248 31598684 ~ 31608806 (+)
LOC103025325 NA coding upstream 272841 31427579 ~ 31434213 (+)
rhag rhag,LOC107549521,LOC107695981 coding upstream 288937 31398412 ~ 31418117 (+)
tcte1 NA coding downstream 9198 31723005 ~ 31728361 (+)
nfkbie NA coding downstream 36360 31750167 ~ 31759510 (+)
slc35b2 slc35b2,LOC107559116,LOC107704052,LOC107568229 coding downstream 53737 31767544 ~ 31782219 (+)
rbm25 rbm25,LOC107568207,LOC107704053,LOC107669447 coding downstream 89617 31803424 ~ 31816114 (+)
atp6v1d atp6v1d,LOC107568214,LOC106571673 coding downstream 110424 31824231 ~ 31830164 (+)
G22845 NA non-coding upstream 158954 31547750 ~ 31548100 (+)
G22844 NA non-coding upstream 159537 31547192 ~ 31547517 (+)
G22837 NA non-coding upstream 199145 31507450 ~ 31507909 (+)
G22835 nek2,LOC107549520,LOC106571199,LOC107695968 non-coding upstream 201703 31500015 ~ 31505351 (+)
G22822 slc30a1 non-coding upstream 226883 31395732 ~ 31480171 (+)
G22937 hsp90ab1,LOC106942468,LOC102219317 non-coding downstream 75865 31789672 ~ 31792894 (+)
G23022 NA non-coding downstream 642830 32356637 ~ 32357253 (+)
G23053 NA non-coding downstream 778448 32492255 ~ 32492741 (+)
G23057 NA non-coding downstream 808207 32522014 ~ 32527724 (+)
G23062 NA non-coding downstream 811255 32525062 ~ 32547464 (+)
G22834 NA other upstream 212156 31494345 ~ 31494898 (+)
LOC103026436 LOC108411506,LOC103368653 other upstream 1194228 30449364 ~ 30512826 (+)
LOC111195794 LOC107569315,LOC107712034,LOC107751710 other upstream 1443204 30259308 ~ 30263850 (+)
LOC103034207 ube2w,LOC107585923,LOC103354920 other upstream 2524923 29171008 ~ 29182131 (+)
pabpn1 pabpn1,LOC107596039 other upstream 2539141 29152052 ~ 29167913 (+)
G23086 cpsf2,LOC107704064,LOC107548411,LOC107559080,LOC107669458 other downstream 1108537 32822344 ~ 32826939 (+)
LOC103042732 NA other downstream 1123245 32837052 ~ 32841346 (+)
LOC103037425 LOC108426312 other downstream 1362817 33076624 ~ 33081862 (+)
LOC103036694 LOC108426313,LOC108257731 other downstream 1369835 33083642 ~ 33169392 (+)
LOC107197779 LOC107197779,LOC108426271,LOC106607680,LOC108257511 other downstream 1873722 33587529 ~ 33595711 (+)

Expression


Co-expression Network