RetrogeneDB ID:

retro_mdom_10

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:1:68932880..68934464(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000002322
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000013486
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_10
ATGGCGCCTACCATCCAGACTCAGGCTCAGCGGGAAGATGGCCACAGACCCAACTCCCATAGGACAGTGCAAGAGAGGTC
TGGTGTGGTGTGCCGAGTCAAATACTGTAACACTCTTCCCGACATTCCCTTTGATCCCAAGTTCATCACATATCCCTTTG
ACCAGAACCGGTTCGTCCAGTATAAGGCAACCTCTCTAGAAAAACAGCACAAACATGACTTGCTCACAGAGCCCGACCTG
GGAGTCACCATCGACCTCATTAACCCAGACACCTACCGCATTGACCCTAACGTTCTCTTAGATCCGGCAGATGAGAAATT
ATTAGAAGAAGAGATCCAGGCCCCAACCAGCTCCAAAAGGTCCCAGCAGCATGCAAAGGTGGTCCCTTGGATGAGAAAGA
CAGAATATATTTCTACAGAATTCAACCGATATGGGGTCTCTAATGAGAAGCCTGAAGTCAAGATTGGGGTGTCGGTGAAG
CAACAGTTCACGGAAGAGGAGATCTACAAAGATCGAGACAGCCAGATCACTGCCATCGAGAAGACTTTTGAGGATGCCCA
GAAGTCGATCTCTCAACACTACAGCAAGCCAAGGGTGACACCAGTGGAGGTGATGCCTGTTTTCCCAGACTTTAAGATGT
GGATCAATCCCTGTGCCCAGGTGATCTTTGACTCAGATCCAGCCCCCAAGGATACTAGTGGTTCTGCAGCCCTGGAGATG
ATGTCTCAAGCCATGATCAGGGGAATGATGGATGAGGAGGGCAATCAGTTTGTGGCCTACTTTTTGCCAGTGGAAGAGAC
CATGAGGAAGCGCAAGCGTGATCAAGAAGAAGAGATGGACTATACACCAGATGATATCTATGATTATAAAATTGCTAGGG
AGTACAACTGGAATGTGAAGAACAAGGCTAGTAAAGGCTATGAAGAAAACTACTTTTTCATCTTCCGAGAAGGTGATGGG
GTCTACTACAATGAGTTGGAAACCAGGGTCCGCCTTAGTAAACGGAGGGCCAAGGCTGGAGCACAGTCAGGTACCAATGC
CTTACTGGTAGTCAAACACCGCAACATGAATGAGAAGGAACTGGAAGCTCAGGAAGCTCGGAAGGCACAGCTGGAGAACC
ATGAACCAGAAGAGGAGGAGGAAGAAGAGATGGATAAAGAGACACCAGACTCAGATGAGGAAGAGGAAAAAGGAAGTGAC
AGTGAAAAAGAGGCAAGTGAGGAAGAAGAAGAACCATCAGGAAGTGAGAGTGATCAAGAAGATGAAGAGGAGAGTGAGAA
GAATGGGAGTGAAGAAGACAAAGCAGAGGAAGAAAGCAGTGAGGATGAGGCCCGAGCAGCCAGAGACAAGGAGGAAATCT
TCGGGAGTGATGCTGACTCAGAGAAAGATGATGAGGAAGAGAATGGAAGAGGCCGAACCAAGGGCCGTGGGAAGGGTGAA
GATGAGGAAAGTGGCAGTGAGGGGGGGCCTAGGTGGCACAACCCCAGCCCCTCTTTCCTCAATAGCAACATCCACCCAGC
CAAAGAGTATGGTAGTAAGGGGGTCACATCTGGCTCCATTGAGGAGGCCAGTGACAGTGACTGA

ORF - retro_mdom_10 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.05 %
Parental protein coverage: 96.73 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAPTIQTQAQREDGHRPNSHRTLPERSGVVCRVKYCNSLPDIPFDPKFITYPFDQNRFVQYKATSLEKQH
MAPTIQTQAQREDGHRPNSHRT..ERSGVVCRVKYCN.LPDIPFDPKFITYPFDQNRFVQYKATSLEKQH
RetrocopyMAPTIQTQAQREDGHRPNSHRTVQERSGVVCRVKYCNTLPDIPFDPKFITYPFDQNRFVQYKATSLEKQH
ParentalKHDLLTEPDLGVTIDLINPDTYRIDPNVLLDPADEKLLEEEIQAPTSSKRSQQHAKVVPWMRKTEYISTE
KHDLLTEPDLGVTIDLINPDTYRIDPNVLLDPADEKLLEEEIQAPTSSKRSQQHAKVVPWMRKTEYISTE
RetrocopyKHDLLTEPDLGVTIDLINPDTYRIDPNVLLDPADEKLLEEEIQAPTSSKRSQQHAKVVPWMRKTEYISTE
ParentalFNRYGISNEKPEVKIGVSVKQQFTEEEIYKDRDSQITAIEKTFEDAQKSISQHYSKPRVTPVEVMPVFPD
FNRYG.SNEKPEVKIGVSVKQQFTEEEIYKDRDSQITAIEKTFEDAQKSISQHYSKPRVTPVEVMPVFPD
RetrocopyFNRYGVSNEKPEVKIGVSVKQQFTEEEIYKDRDSQITAIEKTFEDAQKSISQHYSKPRVTPVEVMPVFPD
ParentalFKMWINPCAQVIFDSDPAPKDTSGSAALEMMSQAMIRGMMDEEGNQFVAYFLPVEETMRKRKRDQEEEMD
FKMWINPCAQVIFDSDPAPKDTSGSAALEMMSQAMIRGMMDEEGNQFVAYFLPVEETMRKRKRDQEEEMD
RetrocopyFKMWINPCAQVIFDSDPAPKDTSGSAALEMMSQAMIRGMMDEEGNQFVAYFLPVEETMRKRKRDQEEEMD
ParentalYAPDDVYDYKIAREYNWNVKNKASKGYEENYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLV
Y.PDD.YDYKIAREYNWNVKNKASKGYEENYFFIFREGDGVYYNELETRVRLSKRRAKAG.QSGTNALLV
RetrocopyYTPDDIYDYKIAREYNWNVKNKASKGYEENYFFIFREGDGVYYNELETRVRLSKRRAKAGAQSGTNALLV
ParentalVKHRDMNEKELEAQEARKAQLENHEPEEEEEEELEMEKEAPGSDEEREKGSGSEKEASEEEEEERSGSES
VKHR.MNEKELEAQEARKAQLENHEPEEEEEE..EM.KE.P.SDEE.EKGS.SEKEASEEEEE..SGSES
RetrocopyVKHRNMNEKELEAQEARKAQLENHEPEEEEEE--EMDKETPDSDEEEEKGSDSEKEASEEEEEP-SGSES
ParentalERGEEEKESEKSGSGEDEPEEESSEDEARAARDKEEIFGSDADSEEDEEEEEEEEDGGGQAGGSGEDEDE
...E.E.ESEK.GS.ED..EEESSEDEARAARDKEEIFGSDADSE.D.EEE.....G.G...G.G..EDE
RetrocopyDQ-EDEEESEKNGSEEDKAEEESSEDEARAARDKEEIFGSDADSEKDDEEE----NGRGRTKGRGKGEDE
ParentalESGSEGEPGRRSRSRSHSRSHSPSRSPSPSPSFLSASDHSAQE
ESGSEG.P.....S.S...S.........S....S.S...A..
RetrocopyESGSEGGPRWHNPSPSFLNSNIHPAKEYGSKGVTSGSIEEASD

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 620 .34 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_10 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_10 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 ENSMODG00000013486 1 retrocopy
retro_mdom_10 ,


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