RetrogeneDB ID:

retro_mdom_195

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:33781782..33784548(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000025347
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000007267
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_195
ATGGACCCCAACAGCGGCTTTTGGGACATGACTTCTCCTGTTGTCAGAGATGTGGAGGTGACGCGGACGGCTCGAAGACA
AAGTGCACACAAAAGAGTATCTACCTTGCCTCCCCAAGAAGACACTTTGGCCAACACCCTGCCAAGAAACCAAGGGATTT
CTCGAATTCCTAGCTTATATCGCCACACTTTTACTTCCCTGAATCGAAGGCAGTCAGATGTTTCTGCCATTCTTGCAAGT
GGAATAAGGTCTCCTCGGCTAGCTCCTTTAACCGCCTTCTTGGGAAATCTGCCTTCTGTAACTTCTCTAGATGAGAGTAA
CTGGTCAGCTGCAGTCTCCTCACCGCCCTCGGGGCTCTTCACAGATGTAGATCCTTCCAATGTTGCCGAAGATGTCAGTT
TTAGTGCTGTTATGCTATGTGAGGATGATCCTGGAGAAGCTGCAACAATGAGTATCTATTTTGACTTCCTGTACACATTT
CTCAAGCATGCTTCCAATACAGTTTTTGAACTGGTAGAAGAGTATGAGAGTATCTGTGACAGCCACGTGAATATATTAGG
TAAAATAGTGAGCAGAGCAACCCCTGGGCTCCAGAAGTTTTCAAAAACAGCCAGTGTGCTGTGGCTTCTTCAGCAGGAGA
TGGTTACTTGGAGACTTATAGCTTCTCTTTACAGAGACAGAATACAATCTGTACTAGAAGAAGAAAACGCATTTGAAATT
GCTTCTCTAAATGCTAGTGAAAAGACAGTTGTGGATACACTGTTTCAACGAGATTCACTTATTCGACAAAGCCAACTGGT
GGTCGATTGGTTAGAGAGTATTGCCAAAGATGACATTAGAGACATCTCAGATAACATCGAGTTTTATGCAAAATCAGTAT
ATTGGGAAAACACTCTGCATATTTTGAAGCAGCAGCAATTAATTTCATTTATTGGAAACAGCCGTCCTCTTGTTACTGAA
TTGGACCCTGATGCTCCTATAAGACAGAAAATGCCACTTGATGATTTGGATCGAGAAGACGATAACAGATTACTCAAATT
CCTTTTCACCCTTATTCGGTCTGGGCTGACAGATGAGGCACAGCGTCTCTGCAAACGTTGTGGTCAAGCATGGAGAGCTG
CCACCCTTGAAGGTTGGAAATTATATCATGACCCCAATGTTAATGGAGGAACAGAATTAGAACCAGTGGAAGGGAATCCA
TATAGATGCATTTGGAAAATAAGCTGTTGGAGAATGGCAGAAGATGAGCTATTTAATAGATATGAGAGAGCAATCTATGC
AGCCTTAAGTGGGAATCTCAAGCAACTTCTCCCTGTCTGTGAGACCTGGGAAGATACAGTGTGGGCCTACTTTAGGGTAA
TGGTAGACAGTTTGGTGGAACAGGAAGTTCGGACTTCAGTTGTAACATTAGATGAAACTGAAGAACTGCCTCGAGAACAT
TTAGAAGCAAATTGGACTTTAGAAAAAGTTTTTGAAGAGCTCCAAGCCACAGATAAAAAGAGAGTTTTAGAGGAGAATCA
AGAACACTACCATATAATTCAAAAATTCCTTATCTTGGGAGACATTGATAGTTTGATGGATGAATTTACTAAATGGCTTT
CCAAGGGAAGGAGTATTCTACCTGGACACCTTCTCCGCTTCATGATCCATCTTATTTTGTTTTTTCGCACTCTGGGAATA
CAGACCAAAGAATCTGTGTCTGTAGAAGTTTTAAAGGCCTACATTCAGCTGTTAATCTGCAAGAAACATATGAGGCTGAT
AGCATTTTATACTTGCCATTTGCCTCAAGACCAAGGTGTTGCTCAATATGCAGAATTTTTGGAAGGTATAACAGAATTTG
AACAGCGTCATCATTGTCTGGAGCTGGCTAGAGAAGCAGGTCTGGATGTTGCAACAATAACAAAAACTGTAGTTGAGAAC
ACCCGAAAGAAAGATGCTGGTGAGTTTAGTCATCATGATATAGCACCTTGCCTGGATATTGGCACTACAGAGGAGGACCG
CTTAAAGATTGATGTGATTGACTGGTTGGTATTTGATCCTGCGCAGAGGGCTGAAGCACTGAAGCAAGGCAATGCTATTG
TGAGGAAATTCTTGGCATCTAAGAAACATGAAGCTGCAAAAGAAGTGTTTGCGAAAATTCCCCAGGATTCCATAGCAGAA
ATTTATAATCAGTGGGAAGAACAAGGGATGGAAAGTCCACTTCCAGCTGAAGATGACAATGCTATCAGAGAACATTTATG
CATTAGAGCTTATCTGGAAATGCATGAAATATTTAATGAGTGGTTCAAGCATATGAATTCAGCTCCACCAAAACCTACTT
TGCTACGCCAAGCTTCCTTTACAGAGAAAGTAGCTTATGAGCACAAAGAAAAGAAATATGAAATGGACTATGGGATATGG
AAAGCTCACTTGGATGTTCTAACAACTGAAGTAAAAGAGAAAATGTACAATGTCTTACTATTTGTTGATGGAGGGTGGAT
GGTAGATGTCAGAGAAGATGCTGAAGAAGACCACGAAAGAACCCATCAGATGGTTTTGCTGAGGAGGCTTTGCCTGCCAA
TGATGTGCTTCCTGCTTCACACAATATTGCACAGCACAGACCAGTACCAGGAGTGCCTGCAGCTTGCTGATGTGATTTCA
TCAGAGCGCCACAAGCTTTATAGTGTATTTTCTAAGGAAGAACTAAGGAAGCTGTTACAGAAGCTAAGAGAGTCATCATT
AATGCTTTTAGATCAGGGACTTGATCCTTTGGGTTATGAGAGTTAG

ORF - retro_mdom_195 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.32 %
Parental protein coverage: 99.78 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMDSGSCFGEMASPMVRDVEVTRTARRQSAHKRVSILTPQEDILANATPRNQMIPRTPNSHCQTLFRSLLR
MD..S.F..M.SP.VRDVEVTRTARRQSAHKRVS.L.PQED.LAN..PRNQ.I.R.P.....T......R
RetrocopyMDPNSGFWDMTSPVVRDVEVTRTARRQSAHKRVSTLPPQEDTLANTLPRNQGISRIPSLYRHTFTSLNRR
ParentalQPDVSAILATGTKSPRLAPLSTSLGNLPMTTNLDESNWTANFSPQRSGIFANNEPSNMTEDVTLSAVMLR
Q.DVSAILA.G..SPRLAPL...LGNLP..T.LDESNW.A..S...SG.F....PSN..EDV..SAVML.
RetrocopyQSDVSAILASGIRSPRLAPLTAFLGNLPSVTSLDESNWSAAVSSPPSGLFTDVDPSNVAEDVSFSAVMLC
ParentalEDDPGEAATMSMYSDFLHTFLKHASNTVFELIEEYENICESQVNILSKIASRATPGLQKFSKTASVLWLL
EDDPGEAATMS.Y.DFL.TFLKHASNTVFEL.EEYE.IC.S.VNIL.KI.SRATPGLQKFSKTASVLWLL
RetrocopyEDDPGEAATMSIYFDFLYTFLKHASNTVFELVEEYESICDSHVNILGKIVSRATPGLQKFSKTASVLWLL
ParentalQQEMVTWRLLASLYKDRIQSVLEEENAFAIASLNASEKTVVDTLFQRDSLIRQSQLVVDWLESIAKDDIG
QQEMVTWRL.ASLY.DRIQSVLEEENAF.IASLNASEKTVVDTLFQRDSLIRQSQLVVDWLESIAKDDI.
RetrocopyQQEMVTWRLIASLYRDRIQSVLEEENAFEIASLNASEKTVVDTLFQRDSLIRQSQLVVDWLESIAKDDIR
ParentalDFSDNIEFYAKSVYWENTLHTLKQRQLISFIGSVRPLVTELDPDAPIRQKMPLDDLDREDDNRLLKYLFT
D.SDNIEFYAKSVYWENTLH.LKQ.QLISFIG..RPLVTELDPDAPIRQKMPLDDLDREDDNRLLK.LFT
RetrocopyDISDNIEFYAKSVYWENTLHILKQQQLISFIGNSRPLVTELDPDAPIRQKMPLDDLDREDDNRLLKFLFT
ParentalLIRSGMTDEAQRLCKRCGQAWRAATLEGWKLYHDPNVNGGTELEPVEGNPYRCIWKISCWRMAEDELFNK
LIRSG.TDEAQRLCKRCGQAWRAATLEGWKLYHDPNVNGGTELEPVEGNPYRCIWKISCWRMAEDELFN.
RetrocopyLIRSGLTDEAQRLCKRCGQAWRAATLEGWKLYHDPNVNGGTELEPVEGNPYRCIWKISCWRMAEDELFNR
ParentalYERAIYAALSGNLKQLLPVCETWEDTVWAYFRVMVDSLVEQEVRTSVVTLDETEELPREHLEANWTLEKV
YERAIYAALSGNLKQLLPVCETWEDTVWAYFRVMVDSLVEQEVRTSVVTLDETEELPREHLEANWTLEKV
RetrocopyYERAIYAALSGNLKQLLPVCETWEDTVWAYFRVMVDSLVEQEVRTSVVTLDETEELPREHLEANWTLEKV
ParentalFEELQATDKKRVLEENQEHYHVIQKFLILGDIDGMMEEFLKWLSKGKNLLPGHLLRFMTHLVLFFRTLGI
FEELQATDKKRVLEENQEHYH.IQKFLILGDID..M.EF.KWLSKG...LPGHLLRFM.HL.LFFRTLGI
RetrocopyFEELQATDKKRVLEENQEHYHIIQKFLILGDIDSLMDEFTKWLSKGRSILPGHLLRFMIHLILFFRTLGI
ParentalQIKEEVSVQVLKAYIQLLICEKHANLIAFYTSHLPQDLAVAQYAAFLEGVTEFEQRHRCLELAKEAGLDV
Q.KE.VSV.VLKAYIQLLIC.KH..LIAFYT.HLPQD..VAQYA.FLEG.TEFEQRH.CLELA.EAGLDV
RetrocopyQTKESVSVEVLKAYIQLLICKKHMRLIAFYTCHLPQDQGVAQYAEFLEGITEFEQRHHCLELAREAGLDV
ParentalATITKTVVENTRRKDAGDFSHHDTAPSLDTGTTEEDRSKIDVIDWLVFDPAQRAEALKQGNAIMRKFLAS
ATITKTVVENTR.KDAG.FSHHD.AP.LD.GTTEEDR.KIDVIDWLVFDPAQRAEALKQGNAI.RKFLAS
RetrocopyATITKTVVENTRKKDAGEFSHHDIAPCLDIGTTEEDRLKIDVIDWLVFDPAQRAEALKQGNAIVRKFLAS
ParentalKKHEAAKEVFAKIPQDCIAEIYNQWEENGMDTPLPAEDDNAIREHLCIRAYLEAHETFNEWFKHMNSAPQ
KKHEAAKEVFAKIPQD.IAEIYNQWEE.GM..PLPAEDDNAIREHLCIRAYLE.HE.FNEWFKHMNSAP.
RetrocopyKKHEAAKEVFAKIPQDSIAEIYNQWEEQGMESPLPAEDDNAIREHLCIRAYLEMHEIFNEWFKHMNSAPP
ParentalKPTLLPQSSFTEKVAHEHKEKKYEMDFGIWKGHLDALTAEVKEKMYNVLLFVDGGWMVDVREDAEDDPER
KPTLL.Q.SFTEKVA.EHKEKKYEMD.GIWK.HLD.LT.EVKEKMYNVLLFVDGGWMVDVREDAE.D.ER
RetrocopyKPTLLRQASFTEKVAYEHKEKKYEMDYGIWKAHLDVLTTEVKEKMYNVLLFVDGGWMVDVREDAEEDHER
ParentalTHQMALLRRLCLPMLCFLLHTILHSTNQFQECLQLADMVSSERHKLYTVFSKEELRKLLQKLRESSLMLL
THQM.LLRRLCLPM.CFLLHTILHST.Q.QECLQLAD..SSERHKLY.VFSKEELRKLLQKLRESSLMLL
RetrocopyTHQMVLLRRLCLPMMCFLLHTILHSTDQYQECLQLADVISSERHKLYSVFSKEELRKLLQKLRESSLMLL
ParentalDQGLDPLGYES
DQGLDPLGYES
RetrocopyDQGLDPLGYES

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 .00 RPM 0 .00 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .00 RPM
SRP007412_liver 0 .00 RPM 0 .00 RPM
SRP007412_testis 0 .00 RPM 0 .00 RPM

ChIP-Seq - click to see more details

Monodelphis domestica was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mdom_195 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_195 was not experimentally validated.

Retrocopy orthology:
Monodelphis domestica does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Monodelphis domestica ENSMODG00000007267 1 retrocopy
retro_mdom_195 ,


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