RetrogeneDB ID:

retro_mmul_810

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:11:55498544..55499086(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.332
Ensembl ID:ENSMMUG00000002792
Aliases:None
Description:ADP-ribosylation factor 1 [Source:RefSeq peptide;Acc:NP_001180216]


Retrocopy-Parental alignment summary:






>retro_mmul_810
ATGGGGAATATCTTTACCAACCTCTTTAAGGGTGTTTTTGGCAGAAAAGAAACGCTTGTCCTCATGATGGGCCTGGATGC
TGCAGGCAAGATGATGATTCTGTATAAGCTGATGCTGGGTGAGATTGTGACCACCACTCCCATCACAGGCTTCAGTACAG
ACCCATGGAGTCTAAGAACATCAGCTTCACTGTGTGGTACACGGCAGGCCAGCACAAGATCTGGCCTCTGTGGTGCCACT
ACTTCCAGAACACATAAGGCCTGATCTTTATGGAGGACAGTAGTGACAGAGAGCACATGAACAAGGTCCATGAGGAGCTC
ATGAGGATGTTGGCTCAGGATGAGCTCTGGAATGCGGTCCCCCTGGTGTTCACTAACAAGTAGGCCCTCTTCAACACCAT
GAACACCACTGAGATCACAGACAAGCTGGGGCTGCATTCCCTGCTCCACAGGAACTGGTACATTCAGGCCACCTGTGGCT
CCCGTGGTGACCAGCTCCATGAAGGACTGGACTGGCTGTCCCGTCAGCTCCAGAACTAGAAG

ORF - retro_mmul_810 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.78 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 3
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMGNIFANLFKGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVET-VEYKNISFTVWDVG
MGNIF.NLFKG.FG.KE...LM.GLDAAGK..ILYKL.LGEIVTT.P..GF......E.KNISFTVW...
RetrocopyMGNIFTNLFKGVFGRKETLVLMMGLDAAGKMMILYKLMLGEIVTTTPITGFSTDP<MESKNISFTVWYTA
ParentalGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEI
GQ.KI.PLW.HYFQNT.GLIF..DS.DRE..N...EELMRMLA.DEL..AV.LVF.NK..L.N.MN..EI
RetrocopyGQHKIWPLWCHYFQNT*GLIFMEDSSDREHMNKVHEELMRMLAQDELWNAVPLVFTNK*ALFNTMNTTEI
ParentalTDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQK
TDKLGLHSL.HRNWYIQATC...GD.L.EGLDWLS.QL.N.K
RetrocopyTDKLGLHSLLHRNWYIQATCGSRGDQLHEGLDWLSRQLQN*K

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 146 .23 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 395 .78 RPM
SRP007412_cerebellum 0 .00 RPM 98 .35 RPM
SRP007412_heart 0 .00 RPM 135 .79 RPM
SRP007412_kidney 0 .00 RPM 145 .65 RPM
SRP007412_liver 0 .00 RPM 254 .56 RPM
SRP007412_testis 0 .08 RPM 201 .74 RPM

ChIP-Seq - click to see more details

Macaca mulatta was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmul_810 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_810 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_810 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Gorilla gorilla retro_ggor_801
Pongo abelii retro_pabe_849
Parental genes homology:
Parental genes homology involve 29 parental genes, and 74 retrocopies.

Species Parental gene accession Retrocopies number
Anas platyrhynchos ENSAPLG000000045091 retrocopy
retro_apla_4,
Bos taurus ENSBTAG000000077252 retrocopies
retro_btau_1257, retro_btau_1390,
Callithrix jacchus ENSCJAG0000001667110 retrocopies
retro_cjac_1295, retro_cjac_1691, retro_cjac_1719, retro_cjac_2189, retro_cjac_2896, retro_cjac_300, retro_cjac_3181, retro_cjac_3311, retro_cjac_3335, retro_cjac_390,
Ciona savignyi ENSCSAVG000000070111 retrocopy
retro_csav_2,
Dasypus novemcinctus ENSDNOG000000104543 retrocopies
retro_dnov_2375, retro_dnov_2459, retro_dnov_26,
Dipodomys ordii ENSDORG000000076034 retrocopies
retro_dord_31, retro_dord_351, retro_dord_409, retro_dord_573,
Erinaceus europaeus ENSEEUG000000046384 retrocopies
retro_eeur_328, retro_eeur_660, retro_eeur_684, retro_eeur_76,
Ficedula albicollis ENSFALG000000010881 retrocopy
retro_falb_2,
Gallus gallus ENSGALG000000053931 retrocopy
retro_ggal_7,
Latimeria chalumnae ENSLACG000000190091 retrocopy
retro_lcha_10,
Myotis lucifugus ENSMLUG000000070206 retrocopies
retro_mluc_1631, retro_mluc_242, retro_mluc_2605, retro_mluc_428, retro_mluc_511, retro_mluc_876,
Macaca mulatta ENSMMUG00000002792 3 retrocopies
retro_mmul_237, retro_mmul_541, retro_mmul_810 ,
Macaca mulatta ENSMMUG000000069681 retrocopy
retro_mmul_174,
Macaca mulatta ENSMMUG000000186171 retrocopy
retro_mmul_50,
Nomascus leucogenys ENSNLEG000000141373 retrocopies
retro_nleu_210, retro_nleu_227, retro_nleu_2929,
Otolemur garnettii ENSOGAG000000109744 retrocopies
retro_ogar_2431, retro_ogar_295, retro_ogar_3353, retro_ogar_974,
Ochotona princeps ENSOPRG000000150632 retrocopies
retro_opri_317, retro_opri_759,
Procavia capensis ENSPCAG000000142022 retrocopies
retro_pcap_15, retro_pcap_23,
Pongo abelii ENSPPYG000000001483 retrocopies
retro_pabe_3159, retro_pabe_849, retro_pabe_965,
Pelodiscus sinensis ENSPSIG000000097671 retrocopy
retro_psin_12,
Pan troglodytes ENSPTRG000000020662 retrocopies
retro_ptro_112, retro_ptro_5,
Pteropus vampyrus ENSPVAG000000073831 retrocopy
retro_pvam_1324,
Rattus norvegicus ENSRNOG000000305913 retrocopies
retro_rnor_1268, retro_rnor_1348, retro_rnor_1950,
Sarcophilus harrisii ENSSHAG000000145993 retrocopies
retro_shar_106, retro_shar_462, retro_shar_725,
Sus scrofa ENSSSCG000000139922 retrocopies
retro_sscr_429, retro_sscr_82,
Ictidomys tridecemlineatus ENSSTOG000000092883 retrocopies
retro_itri_1754, retro_itri_273, retro_itri_363,
Taeniopygia guttata ENSTGUG000000002331 retrocopy
retro_tgut_2,
Tetraodon nigroviridis ENSTNIG000000116851 retrocopy
retro_tnig_19,
Vicugna pacos ENSVPAG000000032244 retrocopies
retro_vpac_281, retro_vpac_328, retro_vpac_6, retro_vpac_78,


Copyright © RetrogeneDB 2014-2017