RetrogeneDB ID:

retro_mdom_149

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:4:269855734..269857324(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000024288
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000019582
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_149
ATGGAGCACCGAATAATTGGACCCGGGCCCTACCGCGCGACTAAGCTGTGGAATGAAACAATTGAACTTTTTCGTAGTAA
CATGCCATTACGGAAACATCGAAGTCATTTCAAAAGTTATGAACGTTGCTTCACAGCCTCGGAAGCTGTAGATTGGTTAC
ATGTCCTGCTCAGGCACAGCCAGAACTTTGGCCCAGAAGTGACTCGCAAGCAGACAGTACAGCTGCTCAAAAAGTTCCTG
AAGAACCATGTTATTGAGGACATCAAGGGCAGATGGGGTCAGGAAGACTTCGAGGACAACCGACATCTCTACAGATTTCC
TCCTTCTTCACCCTTGAAACCATACCCAAAGAGATCACCCCACCAAGCAAGTGTTATCAGATTCCCAGACTGGACTCATG
AGCCACCAGGCACTAGCCAGGAGAACATACCAGTGAGGCCTATTGTTATGAATTCTGAATCATGGTACAAGCGTCACAGT
ATTGCTATCGGAGAAGTCCCTGCCTGCCGCCTCGTCTACCGGAGACAGCTGACAGAGGCCAATGTGGAAGAGATCTGGAA
GTCTATGACGTTATCGCATTTACAGAAAATCCTTGACCTGGACTCTCTGGAGGAAGTTTTGGATACCAAGCTTGTCAACT
CAAAGTTTATCATCCACAACGTATACAGTGTTAGTAAGCAGGGAGTCGTCATCCTCACGGATAAATCAAAAGAACTTCCT
CATTGGGTACTGTCAGCTATGAAATGTTTAGCAAATTGGCCTAATTGTTCAGACTTGAAGCATCCTATGTATTCAGGGTT
TGAAAAAGATGTCTTTAAAACCATAGCAGATTACTATGGTCACTTGAAGGAACCTCTGCTCACATTTCAGCTTTTTGATG
CTTTTGTCAGTGTACTTGGTTTGTTACAGAAAGAGAAAATTGCTATTGAAGCATTTCAGATTTGCTGTCTCCTCCTGCCT
CCTGAAAATCGGGGAAAGTTACAACTGTTGATTAGGATGATGGTGAAGATCTGCTTAAACAAGGAGATGCCACCACTCTG
TGATGGCCTTGGCACCCGTACTCTGATGGTTCAGACTTTTTCACGTTGCATCCTGTGCTCCAAGGATGAAGTCGATTTGG
ATGAACTATTAGCTGCCCGGCTGGTGACATTTCTGATGGACAATCACCAGGAGATCTTGCAAGCTCCCTCTTCCTTGCAG
AATTCAATAGAGGAGCGAGTGGCCCATCTACGAAGGGTCCAGATTAAATACCCAGGAGCAGATACTGATGCCACGCTGTC
TGCCCCGCCATTTTGTCGTCAGATTAGTCCAGAAGAATTTGAATACCAAAGAGTATGTGGCTCCCAAGAACCCCTGGAAA
AATTGTTGGAGGAAATTATCATGGATTCCAAACTGTCAGTTAAGGATAAAAAGAAAAAACTGAAACAGTTTCAGAAATCT
TATCCTGAAGTCTACCAGGAACGGTTTCCCACACCAGAGAGTGAAGCGTTGATTTTTCCAGAAAAATCAAAGCCAAAACC
ACAGCTGCTGATGTGGGCACTGAAAAAACCTTTCCAGCCTTTTCAAAGAACTAGAAGTTTTCGGATGTAA

ORF - retro_mdom_149 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.81 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMEHRIIGPGPYRATKLWNETIELFRSNMPLRKHRSHFKSYERCFTASEAVDWLHVLLRHSQNFGPEVTRK
MEHRIIGPGPYRATKLWNETIELFRSNMPLRKHRSHFKSYERCFTASEAVDWLHVLLRHSQNFGPEVTRK
RetrocopyMEHRIIGPGPYRATKLWNETIELFRSNMPLRKHRSHFKSYERCFTASEAVDWLHVLLRHSQNFGPEVTRK
ParentalQTVQLLKKFLKNHVIEDIKGRWGQEDFEDNRHLYRFPPSSPLKPYPKRSPHQASVIRFPDWTHEPPGTSQ
QTVQLLKKFLKNHVIEDIKGRWGQEDFEDNRHLYRFPPSSPLKPYPKRSPHQASVIRFPDWTHEPPGTSQ
RetrocopyQTVQLLKKFLKNHVIEDIKGRWGQEDFEDNRHLYRFPPSSPLKPYPKRSPHQASVIRFPDWTHEPPGTSQ
ParentalENIPVRPIVMNSESWYKRHSIAIGEVPACRLVYRRQLTEANVEEIWKSMTLSHLQKILDLDSLEEVLDTK
ENIPVRPIVMNSESWYKRHSIAIGEVPACRLVYRRQLTEANVEEIWKSMTLSHLQKILDLDSLEEVLDTK
RetrocopyENIPVRPIVMNSESWYKRHSIAIGEVPACRLVYRRQLTEANVEEIWKSMTLSHLQKILDLDSLEEVLDTK
ParentalLVNSKFIIHNVYSVSKQGVVILTDKSKELPHWVLSAMKCLANWPNCSDLKHPMYSGFEKDVFKTIADYYG
LVNSKFIIHNVYSVSKQGVVILTDKSKELPHWVLSAMKCLANWPNCSDLKHPMYSGFEKDVFKTIADYYG
RetrocopyLVNSKFIIHNVYSVSKQGVVILTDKSKELPHWVLSAMKCLANWPNCSDLKHPMYSGFEKDVFKTIADYYG
ParentalHLKEPLLTFQLFDAFVSVLGLLQKEKIAIEAFQICCLLLPPENRRKLQLLIRMMVKICLNKEMPPLCDGL
HLKEPLLTFQLFDAFVSVLGLLQKEKIAIEAFQICCLLLPPENR.KLQLLIRMMVKICLNKEMPPLCDGL
RetrocopyHLKEPLLTFQLFDAFVSVLGLLQKEKIAIEAFQICCLLLPPENRGKLQLLIRMMVKICLNKEMPPLCDGL
ParentalGTRTLMVQTFSRCILCSKDEVDLDELLAARLVTFLMDNHQEILQAPSSLQNSIEERVAHLRRVQIKYPGA
GTRTLMVQTFSRCILCSKDEVDLDELLAARLVTFLMDNHQEILQAPSSLQNSIEERVAHLRRVQIKYPGA
RetrocopyGTRTLMVQTFSRCILCSKDEVDLDELLAARLVTFLMDNHQEILQAPSSLQNSIEERVAHLRRVQIKYPGA
ParentalDTDATLSAPPFCRQISPEEFEYQRVCGSQEPLEKLLEEIIMDSKLSVKDKKKKLKQFQKSYPEVYQERFP
DTDATLSAPPFCRQISPEEFEYQRVCGSQEPLEKLLEEIIMDSKLSVKDKKKKLKQFQKSYPEVYQERFP
RetrocopyDTDATLSAPPFCRQISPEEFEYQRVCGSQEPLEKLLEEIIMDSKLSVKDKKKKLKQFQKSYPEVYQERFP
ParentalTPESEALIFPEKSKPKPQLLMWALKKPFQPFQRTRSFRM
TPESEALIFPEKSKPKPQLLMWALKKPFQPFQRTRSFRM
RetrocopyTPESEALIFPEKSKPKPQLLMWALKKPFQPFQRTRSFRM

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_149 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_149 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 2 parental genes, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Monodelphis domestica ENSMODG000000097181 retrocopy
retro_mdom_1180,
Monodelphis domestica ENSMODG00000019582 1 retrocopy
retro_mdom_149 ,


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