RetrogeneDB ID:

retro_mdom_1887

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:8:235441067..235442915(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000011147
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_1887
CCAGTGTGGGAGACTCATACAGACTTGGGCAGTGGACGACCCTACTATTATAATCCAAGCACTGGGGAGACCACTTGAGA
GTCTCCCTTTGGGCCTACTGAATCTGCATCTAGTACGGCTACCTCTCTATCCCCTCTGGGCAGCCCAGGGGACCCTGAAG
CAGAGTGGGATCAGTACTGGGATGAAGAGAGCTGGAGAGTGTTCTTCTACAACCCCCTGACTGGTGAGACTGCATGGGAA
GAGTCCACCACCCCTGAGATGCAAAAAGAACTCCCTCCCTGTAGCCCAATGGACCAAAGGCCACCAACACCAGAGGCAGA
TTATCCAGACGAGCTAACATGCTACCCAGAGGAAGACTACTCTCCAGTGAGCTCTTACACTGACCCCAGCCCAGGATCCC
CAACCCCAAGGAGAACAACTGACCCCTATACACCCCCTGGCTGGTCCTGCCACATCTCTCCAGATGGGCAGTTGCTCTAT
ACCAACCTTTATACCCAGGAGCAGTGGATGAGATCCGAGGATGAGCAGGGGAAGCCGTACTTCTACAACCCCAGTGACAG
CACTACCCAGTGGGAGCTTCCGCAGGTACCTGTCACAGGCAAGCGCTACCAGAGCTGCAGCAAGACCAGCCAGACCAATG
ATTCCCTGACACTGGCCAGTCCTCCAGAGGCAAAATCTAAGACTCTGGATAAAGCTGGTGTCCTTTATTGCACCAAGACA
GCAGAAAAAGGGAAACGTCTTCGAAAGAAGAATTGGAGCTCCTCCTGGACTGTGCTAGAAGGCGGGATTCTGACCTTCTT
CAAGGAGTCAAAGGCCTCAACTGCTGGCAGCCTGAGACAGCCATCCAACTTGTCAACTCCAGAGTATACTGTGGACCTCC
GAGGAGCTACTCTGAATTGGGCCACCAAGAACAAGTCCAGCAAGAAGAATGTGCTAGAGCGCCAGAGCCGAGATAGCTCT
GAATACCTGATTCAGCACGACTCAGAGACCATAATTGGGACTTGGTACTAGGCGATCATTCAGGGCATCCAGGAGCAGTC
CACAGACCCCTATCCTGAGATTGACTGTGAAAACAGTGCTGATTTGGGGTCCAGTGAGCGACTGGGAGGTGGAAGGGAGA
AAGAAGAGGAAAAGAAGCATTCTATCAGTCCCATGGGTCCTGAGAGTGACTCCAGCAAGGTTCGACACAAACTCCGAAAA
TTCTTGTTGAGGAGACCAACACTGCATTCCCTTCGGGAGAAGGGCTACATCTAAGACCAGGTGTTTGGCTGTGTATTATC
GACGCTGTGTGAGCGAGAGAATAGCCTCATACCGGGCTTTGGGCAGCAGTGTATCCGGACGGTGGAGTCTCGGGGGTTGG
ACATCGATAGATTATACCGCATCAGTGGGAATATGGCCACCATCCAGAAACTACTTTACAAGGTGGACCATGATGAAAGG
CTGGACCTGGATGATGGGTGCTGGGAGGACGTCCATGTCATTACTGGAGCACTGAAGCTCTTCTTCTGGGAGCTATTCGA
GCCCCTCTTCCCCTTCTCTCACTTCTACCAGTTCATCTCAGCCATCAAACTCTCAGATCAGGCCAAGCAGAGCTGCCACG
TCTGGGACCTGGTGCATTCTCTTCCTGCCCCCAATCGGAACACCATGCACCTCCTCTTCCAGTACCTCTGCAGGGTGATC
GAACACAAAGAAGAAAACCACATGTCGGTGCAGAGTGTGGCGATCGTGTTTGGGCCCATGCTGCTGCCACCCGAGTTTGA
GGAGGGGAGTATGCCTGTGACCATGGTGTTTCAGAACCAGGTGGTTGAGCTGATACTTCAGCAGTGCAGGGACATCTTCC
CCCAACGC

ORF - retro_mdom_1887 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.72 %
Parental protein coverage: 68.67 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalPVWETHTDLGSGRPYYYNPSTGETTWESPFGPTESASSPATSLSPLGSPGDPEAEWDQYWDEESRRVFFY
PVWETHTDLGSGRPYYYNPSTGETT.ESPFGPTESASS.ATSLSPLGSPGDPEAEWDQYWDEES.RVFFY
RetrocopyPVWETHTDLGSGRPYYYNPSTGETT*ESPFGPTESASSTATSLSPLGSPGDPEAEWDQYWDEESWRVFFY
ParentalNPLTGETAWEESTTPEMQTELAPCSPMDQRPPTPEADYPEELTCYPEEDYSPVSSYTDPSPGSPTPRRTT
NPLTGETAWEESTTPEMQ.EL.PCSPMDQRPPTPEADYP.ELTCYPEEDYSPVSSYTDPSPGSPTPRRTT
RetrocopyNPLTGETAWEESTTPEMQKELPPCSPMDQRPPTPEADYPDELTCYPEEDYSPVSSYTDPSPGSPTPRRTT
ParentalDPYTPPGWSCHISPDGQLLYTNLYTQEQWMRSEDEQGKPYFYNPSDSTTQWELPQVPVTGQRYQSSSKTS
DPYTPPGWSCHISPDGQLLYTNLYTQEQWMRSEDEQGKPYFYNPSDSTTQWELPQVPVTG.RYQS.SKTS
RetrocopyDPYTPPGWSCHISPDGQLLYTNLYTQEQWMRSEDEQGKPYFYNPSDSTTQWELPQVPVTGKRYQSCSKTS
ParentalQNNDSLTLASPPEAKSKTLDKAGVLYRTKTADKGKRLRKKNWSSSWTVLEGGILTFFKESKASTAGSLRQ
Q.NDSLTLASPPEAKSKTLDKAGVLY.TKTA.KGKRLRKKNWSSSWTVLEGGILTFFKESKASTAGSLRQ
RetrocopyQTNDSLTLASPPEAKSKTLDKAGVLYCTKTAEKGKRLRKKNWSSSWTVLEGGILTFFKESKASTAGSLRQ
ParentalPSNLSTPEYTVDLRGATLNWATKDKSSKKNVLELRSRDSSEYLIQHDSETIIGTWYKAIIQGIQEQVTIG
PSNLSTPEYTVDLRGATLNWATK.KSSKKNVLE..SRDSSEYLIQHDSETIIGTWY.AIIQGIQEQ.T..
RetrocopyPSNLSTPEYTVDLRGATLNWATKNKSSKKNVLERQSRDSSEYLIQHDSETIIGTWY*AIIQGIQEQST--
ParentalNPYPEIDCENSADFGSSERLGGGREKEEEKKHSSNSMGPESDSSKVRHKLRKFLLRRPTLQSLREKGYIK
.PYPEIDCENSAD.GSSERLGGGREKEEEKKHS...MGPESDSSKVRHKLRKFLLRRPTL.SLREKGYI.
RetrocopyDPYPEIDCENSADLGSSERLGGGREKEEEKKHSISPMGPESDSSKVRHKLRKFLLRRPTLHSLREKGYI*
ParentalDQVFGCALSTLCERENSLIPRFVQQCIRTVESRGLDIDGLYRISGNLATIQKLRYKVDHDERLDLDDGRW
DQVFGC.LSTLCERENSLIP.F.QQCIRTVESRGLDID.LYRISGN.ATIQKL.YKVDHDERLDLDDG.W
RetrocopyDQVFGCVLSTLCERENSLIPGFGQQCIRTVESRGLDIDRLYRISGNMATIQKLLYKVDHDERLDLDDGCW
ParentalEDVHVITGALKLFFRELPEPLFPFSHFHQFISAIKLSDQAKRSCHVRDLVHSLPAPNQNTMRLLFQHLCR
EDVHVITGALKLFF.EL.EPLFPFSHF.QFISAIKLSDQAK.SCHV.DLVHSLPAPN.NTM.LLFQ.LCR
RetrocopyEDVHVITGALKLFFWELFEPLFPFSHFYQFISAIKLSDQAKQSCHVWDLVHSLPAPNRNTMHLLFQYLCR
ParentalVIEHKEENRMSVQSVAIVFGPTLLRPEFEEGNMPMTMVFQNQVVELILQQCRDIFPQR
VIEHKEEN.MSVQSVAIVFGP.LL.PEFEEG.MP.TMVFQNQVVELILQQCRDIFPQR
RetrocopyVIEHKEENHMSVQSVAIVFGPMLLPPEFEEGSMPVTMVFQNQVVELILQQCRDIFPQR

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_1887 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_1887 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 ENSMODG00000011147 1 retrocopy
retro_mdom_1887 ,


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