RetrogeneDB ID:

retro_mdom_1770

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:7:41254805..41255346(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PRDX2
Ensembl ID:ENSMODG00000006978
Aliases:None
Description:peroxiredoxin 2 [Source:HGNC Symbol;Acc:9353]


Retrocopy-Parental alignment summary:






>retro_mdom_1770
GCTGTATTGGATGGAGCTTTCAAGGAGGTGAAGCTGTCAGACTATAAAGTGAAGTATCTGATCATCTTTTTCTATCCCCT
GGACTTCACCTTTGTGTGCCCCATGGAGATCATAGCCTTCAGTGACTGTTTTTCTTATTTCCATCAGCTGGGCTATGAAG
TCCTTGGTGTGTCCGTGGATTCCCAGTTCGACTCATCTGGCCTAGATCAACACTCCTCGAAAAGAGGGTGGCCTGGGACC
TTTGAAAATCCCCTTGCTGGTAGATGTAACCAGAAACCTTGCTCGAGATTAAAGGGTTCTGAAGAAGGATGAAGGCATTG
CCAACTGGGAACTATTTATTATTGATGCAAAGGGGATTGTCCGGCAAATCACTGTCAATGACCTGCCTGTTGGGCACTCA
GTGGATGAGATTTTGAGGCTATTGCAAGCATTCCAGTACACAAATGAGCATGGGGAAGTATGCCCTGCAGGCAGGAAGCC
TGGAGGAGACACTATCAAGCCCAATGTGGAGGATAGCAAGGAGTATTTCTCTATGAACAAC

ORF - retro_mdom_1770 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.29 %
Parental protein coverage: 90.91 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalAVVDGAFKEVKLSDYEGKYLIIFFYPLDFTFVCPTEIIAFSDRVSDFHQLGCEVLGVSVDSQF-THLAWI
AV.DGAFKEVKLSDY..KYLIIFFYPLDFTFVCP.EIIAFSD..S.FHQLG.EVLGVSVDSQF.THLA.I
RetrocopyAVLDGAFKEVKLSDYKVKYLIIFFYPLDFTFVCPMEIIAFSDCFSYFHQLGYEVLGVSVDSQF>THLA*I
ParentalNTPRKEGGLGPLKIPLLADVTRNLARDYGVLKEDEGIAYRGLFIIDAKGIVRQITVNDLPVGRSVDETLR
NTPRKEGGLGPLKIPLL.DVTRNLARD..VLK.DEGIA...LFIIDAKGIVRQITVNDLPVG.SVDE.LR
RetrocopyNTPRKEGGLGPLKIPLLVDVTRNLARD*RVLKKDEGIANWELFIIDAKGIVRQITVNDLPVGHSVDEILR
ParentalLVQAFQYTDEHGEVCPAGWKPGGDTIKPNVEDSKEYFSKNN
L.QAFQYT.EHGEVCPAG.KPGGDTIKPNVEDSKEYFS.NN
RetrocopyLLQAFQYTNEHGEVCPAGRKPGGDTIKPNVEDSKEYFSMNN

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(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
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1770 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1770 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 23 parental genes, and 46 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000123073 retrocopies
Canis familiaris ENSCAFG000000171633 retrocopies
Ciona intestinalis ENSCING000000030021 retrocopy
Callithrix jacchus ENSCJAG000000048824 retrocopies
Dipodomys ordii ENSDORG000000090051 retrocopy
Felis catus ENSFCAG000000004731 retrocopy
Homo sapiens ENSG000001678153 retrocopies
Gorilla gorilla ENSGGOG000000250893 retrocopies
Macaca mulatta ENSMMUG000000056892 retrocopies
Monodelphis domestica ENSMODG000000023822 retrocopies
Monodelphis domestica ENSMODG00000006978 1 retrocopy
retro_mdom_1770 ,
Monodelphis domestica ENSMODG000000092861 retrocopy
Mustela putorius furoENSMPUG000000045912 retrocopies
Mus musculus ENSMUSG000000051612 retrocopies
Nomascus leucogenys ENSNLEG000000128002 retrocopies
Otolemur garnettii ENSOGAG000000249982 retrocopies
Pongo abelii ENSPPYG000000096073 retrocopies
Pan troglodytes ENSPTRG000000105413 retrocopies
Rattus norvegicus ENSRNOG000000035202 retrocopies
Sorex araneus ENSSARG000000001461 retrocopy
Sarcophilus harrisii ENSSHAG000000155961 retrocopy
Sus scrofa ENSSSCG000000137362 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000258621 retrocopy



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