RetrogeneDB ID:

retro_mmul_1100

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:14:57483109..57483591(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.2512
Ensembl ID:ENSMMUG00000007551
Aliases:None
Description:ribosomal protein L13a [Source:RefSeq peptide;Acc:NP_001182348]


Retrocopy-Parental alignment summary:






>retro_mmul_1100
ATTTCTGGCAATTTCCACAGAAACTAGTTGAAGTACCTGGTTTTCCTCCACAAGCAGATGAACACCAACTCTTCCGAGGC
TCCTACCACTTCCGGGCCCTCTGCTGCATGTTCCGGCGGACGCTGCGAGGCATGCTGCCCCACAAAACCAAGCGAGGCCA
GGCTGCCCTGGACCGCCTCAAGGTGTTTGACATCATCCCACTACCCTAAGAAAAGAAACAGTGGATGACAGTTCCTGCTG
CCCTCAAGGTCGTGCATCTGAAGCCTATGAGGAAGTCTGCCTATCTGGGGCGCCTGGCTCACGAGGTTGGCTAGAAGTAC
CAGGCAGTGACAGCTACCCTGGAGGAGAAGAGGAAGGAGAAAGCCAAGATCCACTACTGGAAGAAGAAACAGCTCATGAG
GCTACGGAAACTGGCAGAGAAGAACGTGGAGAAGAAAATTGACAAATACACAGAAGTCCTCAAGACCCACGGCCTCCTGG
TC

ORF - retro_mmul_1100 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.1 %
Parental protein coverage: 79.31 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalISGNFYRNKLKYLAFLRKRMNTNPS-RGPYHFRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGIPPP
ISGNF.RN.LKYL.FL.K.MNTN.S.RG.YHFRA....F.RT.RGMLPHKTKRGQAALDRLKVFD.IP.P
RetrocopyISGNFHRN*LKYLVFLHKQMNTNSS<RGSYHFRALCCMFRRTLRGMLPHKTKRGQAALDRLKVFDIIPLP
ParentalYDKKKRMVVPAALKVVRLKHTRKFAYLGRLAHEVGWKYQAVTATLEEKRKEKAKIHYRKKKQLMRLRKQA
..KK..M.VPAALKVV.LK..RK.AYLGRLAHEVG.KYQAVTATLEEKRKEKAKIHY.KKKQLMRLRK.A
Retrocopy*EKKQWMTVPAALKVVHLKPMRKSAYLGRLAHEVG*KYQAVTATLEEKRKEKAKIHYWKKKQLMRLRKLA
ParentalEKNVEKKIDKYTQVLKTHGLLV
EKNVEKKIDKYT.VLKTHGLLV
RetrocopyEKNVEKKIDKYTEVLKTHGLLV

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 89 .42 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 247 .11 RPM
SRP007412_cerebellum 0 .06 RPM 122 .30 RPM
SRP007412_heart 0 .00 RPM 287 .48 RPM
SRP007412_kidney 0 .00 RPM 220 .18 RPM
SRP007412_liver 0 .04 RPM 266 .72 RPM
SRP007412_testis 0 .04 RPM 123 .67 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1100 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1100 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1100 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_753
Gorilla gorilla retro_ggor_627

Parental genes homology:
Parental genes homology involve 24 parental genes, and 142 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000052963 retrocopies
Callithrix jacchus ENSCJAG0000000007216 retrocopies
Cavia porcellus ENSCPOG000000124172 retrocopies
Equus caballus ENSECAG000000158323 retrocopies
Erinaceus europaeus ENSEEUG000000140716 retrocopies
Echinops telfairi ENSETEG000000170762 retrocopies
Felis catus ENSFCAG000000091944 retrocopies
Loxodonta africana ENSLAFG000000162133 retrocopies
Microcebus murinus ENSMICG000000093186 retrocopies
Myotis lucifugus ENSMLUG0000000494510 retrocopies
Macaca mulatta ENSMMUG00000007551 14 retrocopies
Mustela putorius furoENSMPUG000000026043 retrocopies
Mus musculus ENSMUSG000000741293 retrocopies
Nomascus leucogenys ENSNLEG0000000521123 retrocopies
Otolemur garnettii ENSOGAG000000046257 retrocopies
Ochotona princeps ENSOPRG000000011943 retrocopies
Procavia capensis ENSPCAG000000040864 retrocopies
Pongo abelii ENSPPYG000000102511 retrocopy
Pan troglodytes ENSPTRG000000112981 retrocopy
Pteropus vampyrus ENSPVAG000000109583 retrocopies
Rattus norvegicus ENSRNOG0000002061810 retrocopies
Sus scrofa ENSSSCG000000031664 retrocopies
Tarsius syrichta ENSTSYG000000087914 retrocopies
Tursiops truncatus ENSTTRG000000054857 retrocopies



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