RetrogeneDB ID:

retro_mmul_1387

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:19:6452428..6454160(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:LONRF1
Ensembl ID:ENSMMUG00000009500
Aliases:None
Description:LON peptidase N-terminal domain and ring finger 1 [Source:HGNC Symbol;Acc:26302]


Retrocopy-Parental alignment summary:






>retro_mmul_1387
TCAGACTTCAGAACCAGCGTCGTCCTCAACCACCTGGCGGAGAAGTGGTTCCCGGGCCAGCGCGAGCGGCCCCGGGCGGC
TGGCAGACTCGGGGAGCTGCTGCACCAGGGGCGCTACCGGGAGGCCTTGGCCGCCGCCTGCGAGGCGCTGCGAGCAGAGC
CCAGTGACTTGATTGTAAAAATGTACAGAGCGGAATCATATGCTGGTCTCCAAGAGTTTAAAGCAGCCATAGAAGATTTC
AATGCAGTTCTTTTTCAACTTCCAGATTGGCCTGAGGCTTACTTCAGGAAAGGAAAAGTACTCTATGATGCTGGTTTTTT
GGGTGATGCCTTACAACTCTGTCTTCAGTGCTTAGCCCTTGATGAAGATGTTGCACCTGCAAAGCTGCAAGTGCAAAAGA
TTTTATGTGATTTATTATTACCTGAAACCTTAAGAGAAGGCCTGAAGGAATCTTCCTGGAATTCATTACCGTGTACTAAA
AACAGACCTTTTGATTTTCCTTCAGTGATGGAAGAGTCTCAGTCTCCCAGTGAGCCTAGCCCAAAGCAGAGTGAAGAAAT
ACCAGAGGTCACTTCAGAGCCCGTCAAAGGAAGCTTAAACCGTGCTCAGTCAGCACAGTCTATCCATTCCACAGAAACGC
CTGCCAGAGAGGACCGTTTAAAAAGAGTGTCCTCAGAACCTGTTCTGTCTGTTCAAGAAAAAGGTGTTCTGCTGAAAAGA
AAGTTGTCTCTTTTAGAACAGGATGTGATTGTAAATGAAGGTGGAAGAAATAAGCTTAAAAAACAAGGAGAAACTCCCAA
TGAAGTCTGTATGTTTTCCTTGGCTTATGGTGATATTCCAGAAGAATGAATCGATGTCTCGGATTTCCAATGTTCTGTCT
GCGTGAGGTGGTTTTTTGAGCCAGTAACAACCCCTTGCGGACATTTATTCTGTAAGAATTGTCTTGAGCGTTGTTTAGAT
CATGCACCACATTGTCCTCTTTGCAAAGAAAGCTTAAAAGAGTATCTAGCAGATAGGAGGTACTGTGTCACACAGCTGTT
GCAAGAATTAATAGTGAAGTATCTGCCTGATGAACTGTCTGAGAGAAAAAAAATATATGATGAAGAAACTGCTGAACTCT
CACACGTGACCAAGAATGTTCCAATATTTGTTTGTACTATGGCCTACCCCACTGTGCCTTGCCCTCTCCGTGTATTTGAG
CCAAGATATAGATTGATGATTCGAAGAAGTATACAGACTGGAACCAAACGGTTTGGCATTGTGTGTCAGTGATACACAAA
ATAGTTTTGCAGATTATGGTTGTATGTTGCAAATGAGAAACGTGCATTTCTTACCTGACGGAAGGTCTGTGGTTGATACA
GTTGGAGGAAAGCGGTTTAGGGTTTTAAAAAGAGGAATGAAAGATGGATATTGCACTGCCGACATTGAATATCTGGAAGA
TGTTAAGGTTGAGAATGAAGATGAGAGTAAGAATCTCAGAGAGCTTCATGATTTGGTTTACTCTCAAGCCTGCAGCTGGT
TTCAGAATTTAAGAGACAGATTTCGAAGCCAAATTCTTCAGCACTTTGGATCAATGCCCGAGAGGGAGAAAAACCTTCAG
GCAATCCCTAATGGACCCACATGGTGTTGGTGGCTTCTTGCAGTTCTCCCTGTAGATCCACGATACCAGCTGTCAGTTTT
GTCAATGAAGTCTTTGAAAGAACGGTTGACAAAGATACAGCATATACTGACC

ORF - retro_mmul_1387 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.77 %
Parental protein coverage: 85.36 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSDFRTSVVLNHLAEKWFPGQRERARAAGRLGELLHQGRYREALAAACEALRAEPSDLIVKIYRAESYAGL
SDFRTSVVLNHLAEKWFPGQRER.RAAGRLGELLHQGRYREALAAACEALRAEPSDLIVK.YRAESYAGL
RetrocopySDFRTSVVLNHLAEKWFPGQRERPRAAGRLGELLHQGRYREALAAACEALRAEPSDLIVKMYRAESYAGL
ParentalQEFKAAIEDLNAVLFQLPDWPEVYFRKGKVLYDAGFLGDALQLFLQCLALDEDFAPAKLQVQKILCDLLL
QEFKAAIED.NAVLFQLPDWPE.YFRKGKVLYDAGFLGDALQL.LQCLALDED.APAKLQVQKILCDLLL
RetrocopyQEFKAAIEDFNAVLFQLPDWPEAYFRKGKVLYDAGFLGDALQLCLQCLALDEDVAPAKLQVQKILCDLLL
ParentalPENLKEGLKGSSWSSLPCTKNRPFDFPSVMEESQSPSEPSPKQSEEIPEVTSEPVKGSLNRAQSAQSINS
PE.L.EGLK.SSW.SLPCTKNRPFDFPSVMEESQSPSEPSPKQSEEIPEVTSEPVKGSLNRAQSAQSI.S
RetrocopyPETLREGLKESSWNSLPCTKNRPFDFPSVMEESQSPSEPSPKQSEEIPEVTSEPVKGSLNRAQSAQSIHS
ParentalTETPAREDCLKRVSSEPVLSVQEKGVLLKRKLSLLEQDVIVNEDGRNKLKKQGETPNEVCMFSLAYGDIP
TETPARED.LKRVSSEPVLSVQEKGVLLKRKLSLLEQDVIVNE.GRNKLKKQGETPNEVCMFSLAYGDIP
RetrocopyTETPAREDRLKRVSSEPVLSVQEKGVLLKRKLSLLEQDVIVNEGGRNKLKKQGETPNEVCMFSLAYGDIP
ParentalEELIDVSDFECSLCMRLFFEPVTTPCGHSFCKNCLERCLDHAPYCPLCKESLKEYLADRRYCVTQLLEEL
EE.IDVSDF.CS.C.R.FFEPVTTPCGH.FCKNCLERCLDHAP.CPLCKESLKEYLADRRYCVTQLL.EL
RetrocopyEE*IDVSDFQCSVCVRWFFEPVTTPCGHLFCKNCLERCLDHAPHCPLCKESLKEYLADRRYCVTQLLQEL
ParentalIVKYLPDELSERKKIYDEETAELSHLTKNVPIFVCTMAYPTVPCPLHVFEPRYRLMIRRSIQTGTKQFG-
IVKYLPDELSE....YDEETAELSH.TKNVPIFVCTMAYPTVPCPL.VFEPRYRLMIRRSIQTGTK.FG.
RetrocopyIVKYLPDELSEXXXXYDEETAELSHVTKNVPIFVCTMAYPTVPCPLRVFEPRYRLMIRRSIQTGTKRFG>
ParentalMCVSDTQNSFADYGCMLQIRNVHFLPDGRSVVDTVGGKRFRVLKRGMKDGYCTADIEYLEDVKVEDEDEI
.CVSDTQNSFADYGCMLQ.RNVHFLPDGRSVVDTVGGKRFRVLKRGMKDGYCTADIEYLEDVKVE.EDE.
RetrocopyLCVSDTQNSFADYGCMLQMRNVHFLPDGRSVVDTVGGKRFRVLKRGMKDGYCTADIEYLEDVKVENEDES
ParentalKNLRELHDLVYSQACSWFQNLRDRFRSQILQHFGSMPEREENLQATPNGPAWCWWLLAVLPVDPRYQLSV
KNLRELHDLVYSQACSWFQNLRDRFRSQILQHFGSMPERE.NLQA.PNGP.WCWWLLAVLPVDPRYQLSV
RetrocopyKNLRELHDLVYSQACSWFQNLRDRFRSQILQHFGSMPEREKNLQAIPNGPTWCWWLLAVLPVDPRYQLSV
ParentalLSMKSLKERLTKIQHILT
LSMKSLKERLTKIQHILT
RetrocopyLSMKSLKERLTKIQHILT

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 .22 RPM 23 .87 RPM
SRP007412_brain_prefrontal_cortex 0 .24 RPM 17 .53 RPM
SRP007412_cerebellum 0 .71 RPM 21 .96 RPM
SRP007412_heart 0 .00 RPM 6 .95 RPM
SRP007412_kidney 0 .00 RPM 11 .27 RPM
SRP007412_liver 0 .00 RPM 3 .84 RPM
SRP007412_testis 0 .11 RPM 28 .91 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_1387 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_1387 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1387 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Macaca mulatta ENSMMUG00000009500 1 retrocopy
retro_mmul_1387 ,




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