RetrogeneDB ID:

retro_mmul_907

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:12:32769945..32770300(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.18639
Ensembl ID:ENSMMUG00000012228
Aliases:None
Description:ubiquitin-conjugating enzyme E2 variant 1 [Source:RefSeq peptide;Acc:NP_001192013]


Retrocopy-Parental alignment summary:






>retro_mmul_907
GCCACCATGGGCTTGGGAGTAAAAGTCCCTCAGAATTTCCAACTGTTGGAAGAACTGGAACAAGGTCAGAAAGGAGTAGG
TGATGGCACAGGTAGCTGGGGTCTAGAAGACAGTGAAGACATGATACTTACAAGATGGACAGAGACGGTAATCGGGCCTC
CAAGAACAATTGATGAAAACTGAATATACAGCCTTAAAATAAAATGTGGACCTAAATACCCAGAAGCACCCACTTTGAAA
GATTTTTAACAAAAATTAATATGAATGGAATTAAGAGTTCTAATGGAGTGGTAGACCAAGAGCCGTATCAGTGCTAGCAA
AATGGCAGAATTCATATAGCATCAAAGTGGTTCTG

ORF - retro_mmul_907 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.82 %
Parental protein coverage: 80.95 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalATTGSGVKVPRNFRLLEELEEGQKGVGDGTVSWGLEDDEDMTLTRWTGMIIGPPRTIYENRIYSLKIECG
AT.G.GVKVP.NF.LLEELE.GQKGVGDGT.SWGLED.EDM.LTRWT...IGPPRTI.EN.IYSLKI.CG
RetrocopyATMGLGVKVPQNFQLLEELEQGQKGVGDGTGSWGLEDSEDMILTRWTETVIGPPRTIDEN*IYSLKIKCG
ParentalPKYPEAPP-FVRFVTKINMNGVNSSNGVVD-PRAISVLAKWQNSYSIKVVL
PKYPEAP..F.RF.TKINMNG..SSNGVVD.PRA.SVLAKWQNSYSIKVVL
RetrocopyPKYPEAPT<FERFLTKINMNGIKSSNGVVD<PRAVSVLAKWQNSYSIKVVL

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 90 .20 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 97 .89 RPM
SRP007412_cerebellum 0 .00 RPM 75 .94 RPM
SRP007412_heart 0 .00 RPM 58 .89 RPM
SRP007412_kidney 0 .00 RPM 66 .67 RPM
SRP007412_liver 0 .00 RPM 34 .40 RPM
SRP007412_testis 0 .00 RPM 171 .54 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_907 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_907 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_907 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 17 parental genes, and 95 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000273164 retrocopies
Canis familiaris ENSCAFG000000322448 retrocopies
Callithrix jacchus ENSCJAG0000003698410 retrocopies
Equus caballus ENSECAG000000118583 retrocopies
Homo sapiens ENSG000002446874 retrocopies
Loxodonta africana ENSLAFG000000273592 retrocopies
Macaca mulatta ENSMMUG000000082231 retrocopy
Macaca mulatta ENSMMUG00000012228 6 retrocopies
Mustela putorius furoENSMPUG000000175573 retrocopies
Nomascus leucogenys ENSNLEG000000069878 retrocopies
Oryctolagus cuniculus ENSOCUG000000261724 retrocopies
Otolemur garnettii ENSOGAG0000002589412 retrocopies
Pan troglodytes ENSPTRG000000136151 retrocopy
Rattus norvegicus ENSRNOG0000002558021 retrocopies
Sus scrofa ENSSSCG000000306321 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000143226 retrocopies
Tarsius syrichta ENSTSYG000000025111 retrocopy



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