RetrogeneDB ID:

retro_mmul_2604

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:X:83647726..83648284(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RBBP9
Ensembl ID:ENSMMUG00000004146
Aliases:None
Description:putative hydrolase RBBP9 [Source:RefSeq peptide;Acc:NP_001247700]


Retrocopy-Parental alignment summary:






>retro_mmul_2604
ATGGCTTCTCCTAGCAAGGCAGTGATTGTTCCCGGGAATGGAGGCGGGGATGTGACCACCCACGGCTGGTATGGCTGGGT
GAAAAAGGAGCTGGAGAAGATACCTGGTTTCCAGTGTTTGGCTAAAAACATGCCCGACCCAGTTACAGCATGAGAGAGCA
TCTGGTTGCCCTTCATGGAGACAGAGCTGCACTGTGATGAGAAGACCATCATTATCGGCCACGGTTCTAGGGCCATCGCA
GCCATGAGGTATGCAGAAACACATCGAGTATATGCTATTGTATTAGTGTCTGCGTACACATCAGACTTGGGGGATGAAAA
TGAGCGTGCAAGTGGATACTTCACCCGCCCCTGGCAGTGGGAGAAGATCAAGGCCAACTGCCCTTACGTTGTGCAGTTTG
GCTCCACTGACGACCCATTCCTTCCCTGGAAGGAACAACAAGAAGTGGCCGATAGGTTGGAAACCAAATTGCACAAATTC
ACTGACCGTGGCCACTTTCAGAACACAGAGTTTCATGAACTGATTACTGTGGTAAAGTCTTTGCTGAAAGTACCAGCA

ORF - retro_mmul_2604 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 97.31 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMASPSKAVIVPGNGGGDVTTHGWYGWVKKELEKIPGFQCLAKNMPDPITARESIWLPFMETELHCDEKTI
MASPSKAVIVPGNGGGDVTTHGWYGWVKKELEKIPGFQCLAKNMPDP.TA.ESIWLPFMETELHCDEKTI
RetrocopyMASPSKAVIVPGNGGGDVTTHGWYGWVKKELEKIPGFQCLAKNMPDPVTA*ESIWLPFMETELHCDEKTI
ParentalIIGHSSGAIAAMRYAETHRVYAIVLVSAYTSDLGDENERASGYFTRPWQWEKIKANCPYIVQFGSTDDPF
IIGH.S.AIAAMRYAETHRVYAIVLVSAYTSDLGDENERASGYFTRPWQWEKIKANCPY.VQFGSTDDPF
RetrocopyIIGHGSRAIAAMRYAETHRVYAIVLVSAYTSDLGDENERASGYFTRPWQWEKIKANCPYVVQFGSTDDPF
ParentalLPWKEQQEVADRLETKLHKFTDRGHFQNTEFHELITVVKSLLKVPA
LPWKEQQEVADRLETKLHKFTDRGHFQNTEFHELITVVKSLLKVPA
RetrocopyLPWKEQQEVADRLETKLHKFTDRGHFQNTEFHELITVVKSLLKVPA

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 .11 RPM 1 .34 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 1 .43 RPM
SRP007412_cerebellum 0 .00 RPM 0 .58 RPM
SRP007412_heart 0 .00 RPM 0 .71 RPM
SRP007412_kidney 0 .00 RPM 2 .58 RPM
SRP007412_liver 0 .00 RPM 2 .49 RPM
SRP007412_testis 0 .00 RPM 1 .43 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_2604 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_2604 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_2604 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000132861 retrocopy
Callithrix jacchus ENSCJAG000000051701 retrocopy
Macaca mulatta ENSMMUG00000004146 1 retrocopy
retro_mmul_2604 ,
Rattus norvegicus ENSRNOG000000079721 retrocopy



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