RetrogeneDB ID:

retro_mmul_1921

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:5:152968478..152968858(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.4224
Ensembl ID:ENSMMUG00000002848
Aliases:None
Description:40S ribosomal protein S14 [Source:RefSeq peptide;Acc:NP_001253845]


Retrocopy-Parental alignment summary:






>retro_mmul_1921
GAAGGAAAAAAAGAACAAGTCATCAGCTTTGGATTTCAGGGGCTGAAGTAGAGAATATATTTGAGGTCTGCCACATTTCT
GTACCTTTCAATGACACTCTGTCCATGTTATTGGTATCGCTGACAAATAAACTATCTGCTGCATGACTGGCGGGTGAAGA
ATAAGGGTGACCGAAATGAATTCTCACCTTAAACCACCATGTTGGCATCCACAATGTGACCCAGAAGTGCAAGGGTCTGG
ACACTGTTGCTCTACACATCAGATTACAGACCACAGGAGGAAATACAACCAAGATCCATGGGCCTGGGGCTCAGTCAGTC
CTCAGTGCCCTTGCTCATTAAGGAAAGGAGATTGGGTAGATTAAGGATGTCATTGACATC

ORF - retro_mmul_1921 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.82 %
Parental protein coverage: 84.77 %
Number of stop codons detected: 4
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalEKKEEQVISLGPQV-AEGENVFGVCHIFASFNDTF-VHVTDLSGKETICRVTGG-MKVKADRDESSPYAA
E.K.EQVIS.G.Q..AE.EN.F.VCHI...FNDT..VHV.....K.TIC..TGG..K.K.DR.E.SP...
RetrocopyEGKKEQVISFGFQG<AEVENIFEVCHISVPFNDTL<VHVIGIADK*TICCMTGG<VKNKGDRNEFSP*TT
ParentalMLAA-QDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALARSGMKIGRIEDVTPI
MLA....V.Q.CK.L...ALHI.L..TGGN.TK..GPGAQS.L.ALA..G..IG.I.DV..I
RetrocopyMLAS<HNVTQKCKGLDTVALHIRLQTTGGNTTKIHGPGAQSVLSALAH*GKEIG*IKDVIDI

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






(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 100 .62 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 190 .07 RPM
SRP007412_cerebellum 0 .00 RPM 110 .29 RPM
SRP007412_heart 0 .00 RPM 250 .20 RPM
SRP007412_kidney 0 .00 RPM 237 .32 RPM
SRP007412_liver 0 .00 RPM 341 .77 RPM
SRP007412_testis 0 .00 RPM 157 .67 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1921 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1921 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1921 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 34 parental genes, and 130 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000150041 retrocopy
Ailuropoda melanoleuca ENSAMEG000000046442 retrocopies
Bos taurus ENSBTAG000000085702 retrocopies
Canis familiaris ENSCAFG000000180942 retrocopies
Callithrix jacchus ENSCJAG000000209811 retrocopy
Cavia porcellus ENSCPOG000000244082 retrocopies
Dipodomys ordii ENSDORG000000071462 retrocopies
Equus caballus ENSECAG000000243363 retrocopies
Erinaceus europaeus ENSEEUG000000104623 retrocopies
Echinops telfairi ENSETEG000000028996 retrocopies
Felis catus ENSFCAG000000110855 retrocopies
Homo sapiens ENSG000001645878 retrocopies
Gorilla gorilla ENSGGOG000000245938 retrocopies
Latimeria chalumnae ENSLACG000000161641 retrocopy
Loxodonta africana ENSLAFG000000311952 retrocopies
Macropus eugenii ENSMEUG000000149071 retrocopy
Microcebus murinus ENSMICG000000029002 retrocopies
Myotis lucifugus ENSMLUG000000132794 retrocopies
Macaca mulatta ENSMMUG00000002848 5 retrocopies
Mustela putorius furoENSMPUG000000137761 retrocopy
Mus musculus ENSMUSG000000246085 retrocopies
Nomascus leucogenys ENSNLEG000000103661 retrocopy
Oryctolagus cuniculus ENSOCUG000000115091 retrocopy
Otolemur garnettii ENSOGAG000000007211 retrocopy
Ochotona princeps ENSOPRG0000000842217 retrocopies
Procavia capensis ENSPCAG000000159603 retrocopies
Pongo abelii ENSPPYG000000159507 retrocopies
Pelodiscus sinensis ENSPSIG000000059221 retrocopy
Pan troglodytes ENSPTRG000000174188 retrocopies
Rattus norvegicus ENSRNOG0000001877410 retrocopies
Sorex araneus ENSSARG000000142491 retrocopy
Sarcophilus harrisii ENSSHAG000000180523 retrocopies
Tupaia belangeri ENSTBEG0000000636810 retrocopies
Tursiops truncatus ENSTTRG000000130351 retrocopy



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